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1. Chloroplast DNA in Pinus monticola. 2. Survey of within-species variability and detection of heteroplasmic individuals

Author:
White, E.E.
Source:
Theoretical and applied genetics 1990 v.79 no.2 pp. 251-255
ISSN:
0040-5752
Subject:
restriction fragment length polymorphism; geographical distribution; Pinus monticola; genome; DNA; genetic variation; inheritance (genetics); chloroplasts; Oregon; Idaho; Nevada; British Columbia; Montana; California
DOI:
10.1007/BF00225959
PubMed:
24226226

2. Chloroplast DNA restriction fragment length polymorphism in Sequoia sempervirens D. Don Endl., Pseudotsuga menziesii (Mirb.) Franco, Calocedrus decurrens (Torr.), and Pinus taeda L

Author:
Ali, I.F.; Neale, D.B.; Marshall, K.A.
Source:
Theoretical and applied genetics 1991 v.81 no.1 pp. 83-89
ISSN:
0040-5752
Subject:
restriction fragment length polymorphism; Calocedrus decurrens; DNA; genetic variation; Pinus taeda; Pseudotsuga menziesii; chloroplasts; Sequoia sempervirens; Oregon; Arkansas; British Columbia; California
DOI:
10.1007/BF00226116
PubMed:
24221163

3. Differentiation of intersterility groups and geographic provenances among isolates of Heterbasidion annosum detected by random amplified polymorphic DNA assays

Author:
Garbelotto, M.; Bruns, T.D.; Cobb, F.W.; Otrosina, W.J.
Source:
Canadian journal of botany 1993 v.71 no.4 pp. 565-569
ISSN:
0008-4026
Subject:
Heterobasidion annosum; DNA; genetic markers; genetic polymorphism; strain differences; provenance; geographical variation; DNA fingerprinting; pathotypes; New Hampshire; California; Oregon; Norway; Finland; Italy
DOI:
10.1139/b93-063

4. Genetic diversity among mycoplasmalike organisms associated with stone fruit diseases

Author:
Ahrens, U.; Lorenz, K.H.; Seemuller, E.
Source:
Molecular plant-microbe interactions 1993 v.6 no.6 pp. 686-691
ISSN:
0894-0282
Subject:
DNA; Southern blotting; DNA probes; genetic variation; plant diseases and disorders; Prunus; Phytoplasma; Germany; California; Southern European region
DOI:
10.1094/MPMI-6-686

5. Genetic diversity in Aspergillus flavus: association with aflatoxin production and morphology

Author:
Bayman, P.; Cotty, P.J.
Source:
Canadian journal of botany 1993 v.71 no.1 pp. 23-31
ISSN:
0008-4026
Subject:
Aspergillus flavus; DNA; genetic polymorphism; genetic markers; aflatoxins; biosynthesis; sclerotia; geographical variation; genetic distance; genetic variation; random amplified polymorphic DNA technique; California; Pakistan; Nigeria; Uganda; Arizona; Louisiana; Georgia
DOI:
10.1139/b93-003

6. Description of a species of Bemisia (Homoptera: Aleyrodidae)

Author:
Bellows, T.S. Jr.; Perrings, T.M.; Gill, R.J.; Headrick, D.H.
Source:
Annals of the Entomological Society of America 1994 v.87 no.2 pp. 195-206
ISSN:
0013-8746
Subject:
Bemisia tabaci; insect pests; DNA; polymerase chain reaction; Bemisia argentifolii; anatomy and morphology; new species; California; Florida
DOI:
10.1093/aesa/87.2.195

7. Floral and ecological isolation between Aquilegia formosa and Aquilegia pubescens

Author:
Hodges, S.A.; Arnold, M.L.
Source:
Proceedings of the National Academy of Sciences of the United States of America 1994 v.91 no.7 pp. 2493-2496
ISSN:
0027-8424
Subject:
Aquilegia; population genetics; genetic variation; DNA; genetic markers; hybrids; interspecific hybridization; altitude; introgression; plant morphology; natural selection; random amplified polymorphic DNA technique; population; California
Abstract:
... Habitat preference and pollination syndrome have been suggested as major factors in reproductive isolation among plant species. The columbine genus Aquilegia contains species that have been used as classic examples of reproductive isolation due to ecological and floral factors. In this analysis Aquilegia formosa, Aquilegia pubescens, and natural hybrid populations between these two species were as ...
DOI:
10.1073/pnas.91.7.2493
PubMed:
8146145
PubMed Central:
PMC43395

8. DNA Fingerprinting Reveals a Lack of Genetic Variation in Northern Populations of the Western Pond Turtle (Clemmys marmorata)

Author:
ELIZABETH M. GRAY
Source:
Conservation biology 1995 v.9 no.5 pp. 1244-1255
ISSN:
0888-8892
Subject:
Clemmys; DNA; Oregon; extinction; founder effect; gene flow; genes; genetic similarity; genetic variation; phylogeny; turtles; wildlife management; California
Abstract:
... I used DNA fingerprinting to provide the first analysis of the genetic composition of western pond turtle (Clemmys marmorata(populations in Washington, Oregon, and California. Populations of the western pond turtle in Washington and northern Oregon are rapidly approaching extinction. Genetic similarity within the largest northern populations, which are located inland, is high. An analysis of popul ...
DOI:
10.1046/j.1523-1739.1995.9051234.x-i1

9. RAPD assessment of California phylloxera diversity

Author:
Fong, G.; Walker, M.A.; Granett, J.
Source:
Molecular ecology 1995 v.4 no.4 pp. 459-464
ISSN:
0962-1083
Subject:
biotypes; DNA; genetic markers; genetic polymorphism; genetic variation; random amplified polymorphic DNA technique; California
DOI:
10.1111/j.1365-294X.1995.tb00239.x

10. The indigenous coastal Californian population of the mushroom Agaricus bisporus, a cultivated species, may be at risk of extinction

Author:
Kerrigan, R.W.; Carvalho, D.B.; Horgen, P.A.; Anderson, J.B.
Source:
Molecular ecology 1998 v.7 no.1 pp. 35-45
ISSN:
0962-1083
Subject:
restriction fragment length polymorphism; endangered species; hybrids; haplotypes; Agaricus bisporus; mitochondrial DNA; hybridization; nuclear genome; polymorphism; population; habitats; California
DOI:
10.1046/j.1365-294x.1998.00294.x

11. Genetic relationships of populations and the origins of new infestations of the Mediterranean fruit fly

Author:
He, M.; Haymer, D.S.
Source:
Molecular ecology 1999 v.8 no.8 pp. 1247-1257
ISSN:
0962-1083
Subject:
alleles; Ceratitis capitata; haplotypes; gene frequency; introns; restriction fragment length polymorphism; NADP-glucose-6-phosphate dehydrogenase; polymerase chain reaction; genetic variance; geographical variation; population; Argentina; Costa Rica; Australia; Greece; California; Peru; Guatemala; Hawaii; Florida
DOI:
10.1046/j.1365-294X.1999.00685.x
PubMed:
10447866

12. Host use evolution in Chrysochus milkweed beetles: evidence from behaviour, population genetics and phylogeny

Author:
Dobler, S.; Farrell, B.D.
Source:
Molecular ecology 1999 v.8 no.8 pp. 1297-1307
ISSN:
0962-1083
Subject:
food plants; mitochondrial DNA; phylogeny; Chrysomelidae; cytochrome-c oxidase; genes; Apocynum cannabinum; haplotypes; plant pests; feeding preferences; restriction fragment length polymorphism; geographical distribution; host plants; nucleotide sequences; genetic variation; population; Asclepias; Utah; California; Nevada; Maryland; Georgia; Colorado
DOI:
10.1046/j.1365-294X.1999.00693.x
PubMed:
10447870

13. Multiple loci determining insensitivity to phenylamide fungicides in Phytophthora infestans

Author:
Judelson, H.S.; Roberts, S.
Source:
Phytopathology 1999 v.89 no.9 pp. 754-760
ISSN:
0031-949X
Subject:
alleles; Solanum tuberosum; fungicide resistance; plant pathogenic fungi; inheritance (genetics); genetic markers; metalaxyl; plant diseases and disorders; DNA; pathotypes; Phytophthora infestans; disease control; Solanum lycopersicum var. lycopersicum; loci; geographical variation; genetic variation; Alberta; Mexico; California; Netherlands; United Kingdom; Egypt
Abstract:
... The diversity of mechanisms causing insensitivity to phenylamide fungicides in Phytophthora infestans was addressed by comparative genetic analyses of isolates from North America, Europe, and Mexico. Both semi-dominant major loci (MEX loci) and genes of minor effect were previously shown to determine insensitivity based on studies of isolates from Europe and Mexico. In this investigation, genetic ...
DOI:
10.1094/PHYTO.1999.89.9.754
PubMed:
18944703

14. A new bipartite geminivirus (Begomovirus) causing leaf curl and crumpling in cucurbits in the Imperial Valley of California

Author:
Guzman, P.; Sudarshana, M.R.; Seo, Y.S.; Rojas, M.R.; Natwick, E.; Turini, T.; Mayberry, K.; Gilbertson, R.L.
Source:
Plant disease 2000 v.84 no.4 pp. 488
ISSN:
0191-2917
Subject:
plant viruses; host range; biolistics; Cucumis melo; DNA; polymerase chain reaction; pathogenicity; Citrullus lanatus; nucleotide sequences; Geminiviridae; California
DOI:
10.1094/PDIS.2000.84.4.488C

15. Early brown rot infections in sweet cherry fruit are detected by Monilinia-specific DNA primers

Author:
Forster, H.; Adaskaveg, J.E.
Source:
Phytopathology 2000 v.90 no.2 pp. 171-178
ISSN:
0031-949X
Subject:
Prunus avium; diagnostic techniques; Monilinia laxa; Botrytis cinerea; DNA; polymerase chain reaction; pathogenicity; plant pathogenic fungi; Monilinia fructicola; genetic variation; pathotypes; California
Abstract:
... Visible and nonvisible quiescent infections of immature and mature fruit are an integral component of the disease cycle of brown rot of sweet cherry in California. Detection of these infections is critical for developing efficient and efficacious fungicide management programs. The previously published DNA amplification primers mfs3 and NS5 for the identification of Monilinia fructicola were very s ...
DOI:
10.1094/PHYTO.2000.90.2.171
PubMed:
18944605

16. Molecular tracking of mountain lions in the Yosemite Valley region in California: genetic analysis using microsatellites and faecal DNA

Author:
Ernest, H.B.; Penedo, M.C.T.; May, B.P.; Syvanen, M.; Boyce, W.M.
Source:
Molecular ecology 2000 v.9 no.4 pp. 433-441
ISSN:
0962-1083
Subject:
microsatellite repeats; endangered species; alleles; loci; DNA primers; DNA; polymerase chain reaction; Puma concolor; feces; genotype; California
DOI:
10.1046/j.1365-294x.2000.00890.x
PubMed:
10736046

17. PCR primers that amplify fungal rRNA genes from environmental samples

Author:
Borneman, J.; Hartin, R.J.
Source:
Applied and environmental microbiology 2000 v.66 no.10 pp. 4356-4360
ISSN:
0099-2240
Subject:
soil fungi; agricultural soils; suppressive soils; ribosomal RNA; Zygomycota; ribosomal DNA; Ascomycota; polymerase chain reaction; Persea americana; DNA primers; genes; nucleotide sequences; species diversity; Basidiomycota; Mastigomycotina; leaves; California
Abstract:
... Two PCR primer pairs were designed to amplify rRNA genes (rDNA) from all four major phyla of fungi: Ascomycota, Basidiomycota, Chytridomycota, and Zygomycota. PCRs performed with these primers showed that both pairs amplify DNA from organisms representing the major taxonomic groups of fungi but not from nonfungal sources. To test the ability of the primers to amplify fungal rDNA from environment s ...
DOI:
10.1128/AEM.66.10.4356-4360.2000
PubMed:
11010882
PubMed Central:
PMC92308

18. Swarm-founding in the polistine wasps: the importance of finding many microsatellite loci in studies of adaptation

Author:
Henshaw, M.T.; Strassmann, J.E.; Queller, D.C.
Source:
Molecular ecology 2001 v.10 no.1 pp. 185-191
ISSN:
0962-1083
Subject:
swarming; microsatellite repeats; loci; Vespidae; DNA primers; DNA; polymerase chain reaction; phylogeny; heterozygosity; Queensland; Venezuela; Kenya; California
Abstract:
... We developed 52 microsatellite loci for the wasp, Polybioides tabidus, for the purpose of studying the evolution and inclusive fitness consequences of swarm-founding. The large number of loci is important for three reasons that may apply to many other systems. Heterozygosity was low in our target species, yet we found enough polymorphic loci for accurate kinship studies in this species. Many monom ...
DOI:
10.1046/j.1365-294X.2001.01172.x
PubMed:
11251797

19. Activating mutations in the catalytic or juxtamembrane domain of c-kit in splenic mast cell tumors of cats

Author:
Dank, Gillian; Chien, May B.; London, Cheryl A.
Source:
American journal of veterinary research 2002 v.63 no.8 pp. 1129-1133
ISSN:
0002-9645
Subject:
DNA; active sites; agarose; cats; databases; dogs; exons; gel electrophoresis; humans; medical education; mutation; neoplasms; polymerase chain reaction; proto-oncogenes; therapeutics; California
Abstract:
... Objective-To evaluate splenic mast cell tumors (MCT) of cats for activating mutations in the protooncogene c-kit. Sample Population-10 formalin-fixed, paraffinembedded splenic MCT from cats in the pathology database of the Veterinary Medical Teaching Hospital at the University of California, Davis. Procedure-Genomic DNA was isolated from tumor specimens, and the polymerase chain reaction (PCR) pro ...
DOI:
10.2460/ajvr.2002.63.1129

20. Characterization of 11 polymorphic tetranucleotide microsatellites for forensic applications in California elk (Cervus elaphus canadensis)

Author:
Jones, K.C.; Levine, K.F.; Banks, J.D.
Source:
Molecular ecology notes 2002 v.2 no.4 pp. 425-427
ISSN:
1471-8278
Subject:
Cervus elaphus canadensis; microsatellite repeats; alleles; loci; DNA primers; DNA; polymerase chain reaction; wildlife management; genetic markers; California
DOI:
10.1046/j.1471-8286.2002.00264.x

21. Multiple genetic factors control self-fertility in almond

Author:
Gradziel, T.M.; Martínez-Gómez, P.; Dandekar, A.; Uratsu, S.; Ortega, E.
Source:
Acta horticulturae 2002 v. no.591 pp. 221-227
ISSN:
0567-7572
Subject:
sequence analysis; cultivars; autogamy; alleles; loci; nectar; DNA; genetic background; honey bees; nectaries; polymerase chain reaction; selfing; volatilization; pistil; progeny; almonds; pollen; pollinating insects; California
Abstract:
... Highly self-fruitful almonds have been developed which combine self-compatibility with autogamy (self-pollination). Pollen-pistil self-compatibility is known to be determined by a single genetic locus (S-locus). Specific SSC-alleles conferring self-compatibility, along with the major self-incompatibility alleles controlling cross-incompatibility in California cultivars, have been identified throug ...
DOI:
10.17660/ActaHortic.2002.591.31

22. Prevalence and importance of internal tandem duplications in exons 11 and 12 of c- kit in mast cell tumors of dogs

Author:
Downing, Sue; Chien, May B.; Kass, Philip H.; Moore, Peter F.; London, Cheryl A.
Source:
American journal of veterinary research 2002 v.63 no.12 pp. 1718-1723
ISSN:
0002-9645
Subject:
DNA; databases; dogs; excision; exons; medical education; metastasis; mutation; neoplasms; polymerase chain reaction; prognosis; regression analysis; California
Abstract:
... Objective-To determine the prevalence of activating internal tandem duplications (ITDs) in exons 11 and 12 of c-kit in mast cell tumors (MCTs) of dogs and to correlate these mutations with prognosis. Sample Population-157 formalin-fixed, paraffinembedded MCTs from dogs in the pathology database of the Veterinary Medical Teaching Hospital at the University of California, Davis. Procedure-Genomic DN ...
DOI:
10.2460/ajvr.2002.63.1718

23. Use of representational difference analysis for the characterization of sequence differences between date palm varieties

Author:
Vorster, B.J.; Kunert, K.J.; Cullis, C.A.
Source:
Plant cell reports 2002 v.21 no.3 pp. 271-275
ISSN:
0721-7714
Subject:
Phoenix dactylifera; DNA; genetic variation; nucleotide sequences; varieties; mutants; polymerase chain reaction; genomics; California; United Arab Emirates
Abstract:
... Representational difference analysis was applied to subtract the genomes of the two date palm varieties, Barhee and Medjool, for identification and characterization of unique genome differences suitable for discriminating between individual plants and the two varieties. Three different DNA difference products were isolated from Barhee representing families of dispersed, repeated variable sequences ...
DOI:
10.1007/s00299-002-0501-9

24. Characterization of Verticillium dahliae Isolates and Wilt Epidemics of Pepper

Author:
Bhat, R.G.; Smith, R.F.; Koike, S.T.; Wu, B.M.; Subbarao, K.V.
Source:
Plant disease 2003 v.87 no.7 pp. 789-797
ISSN:
0191-2917
Subject:
DNA; Verticillium dahliae; Verticillium wilt; coasts; crops; disease incidence; disease outbreaks; greenhouses; hot peppers; inoculum density; intensive cropping; mycelium; paprika; pathogenicity; pepper; plant pathology; random amplified polymorphic DNA technique; sclerotia; seedlings; soil; sweet peppers; temperature; tomatoes; California
Abstract:
... Epidemics of Verticillium wilt in pepper fields of the central coast of California and isolates of Verticillium dahliae associated with these epidemics were characterized. The mean incidence of wilted plants per field ranged from 6.3 to 97.8% in fields with Anaheim, jalapeno, paprika, or bell peppers. In general, incidence of wilt in jalapeno and bell pepper crops was lower than in crops of other ...
DOI:
10.1094/PDIS.2003.87.7.789

25. Development of Fungicide Cross Resistance in Helminthosporium solani Populations from California

Author:
Cunha, M.G.; Rizzo, D.M.
Source:
Plant disease 2003 v.87 no.7 pp. 798-803
ISSN:
0191-2917
Subject:
DNA; Helminthosporium solani; alanine; benomyl; cross resistance; fungicide resistance; genes; glutamic acid; plant pathology; point mutation; polymerase chain reaction; population; potatoes; restriction fragment length polymorphism; thiophanate-methyl; tubulin; California
Abstract:
... Helminthosporium solani populations on potato from the Tulelake area in California frequently have been exposed to thiophanate-methyl but not benomyl. Assessment of three H. solani populations found that 182 of 238 isolates were resistant to both thiophanate-methyl and benomyl and 56 isolates were sensitive to both fungicides. None of the isolates exhibited a differential reaction to the two fungi ...
DOI:
10.1094/PDIS.2003.87.7.798

26. First Report of Phytophthora ramorum on Viburnum bodnantense in Belgium

Author:
De Merlier, D.; Chandelier, A.; Cavelier, M.
Source:
Plant disease 2003 v.87 no.2 pp. 203
ISSN:
0191-2917
Subject:
DNA; DNA primers; Phytophthora ramorum; Rhododendron catawbiense; Viburnum bodnantense; agar; chlamydospores; dieback; fungi; genetic markers; juices; leaves; necrosis; new geographic records; pathogenicity; pathogens; plant pathology; plant protection; polymerase chain reaction; selective media; shoots; sporangia; strains; vascular tissues; wilting; Belgium; California; Germany; Netherlands
Abstract:
... In the past decade, a new Phytophthora species inducing shoot canker on Rhododendron and dieback of Viburnum has been observed in Europe, mainly in Germany and the Netherlands, and California. This new pathogen has been named Phytophthora ramorum (3). In May 2002, a diseased Viburnum plant (Viburnum bodnantense) from the Plant Protection Service (Ministry of Agriculture, Belgium) was submitted to ...
DOI:
10.1094/PDIS.2003.87.2.203C

27. Genetic and morphological analysis of two novel nutsedge biotypes from California

Author:
Tayyar Rana I.; Nguyen Jamie H. T.; Holt Jodie S.
Source:
Weed science 2003 v.51 no.5 pp. 731-739
ISSN:
0043-1745
Subject:
Cyperus esculentus; Cyperus rotundus; DNA; ecotypes; genetic techniques and protocols; genetic variation; hybrids; interspecific variation; isozymes; morphometry; reproduction; California
Abstract:
... The identities of two novel perennial nutsedge biotypes collected near Bakersfield, CA, were assessed using isozyme and random-amplified polymorphic deoxyribonucleic acid markers in conjunction with morphological analysis. The two biotypes, designated as CK (Cyperus rotundus cv. ‘‘Kempeni’’) and CR (Cyperus esculentus cv. ‘‘Robusta’’), morphologically resemble purple nutsedge and yellow nutsedge, ...
DOI:
10.1614/P2002-131

28. Genetic diversity of Xanthomonas campestris pv. vitians, the causal agent of bacterial leafspot of lettuce

Author:
Barak, J.D.; Gilbertson, R.L.
Source:
Phytopathology 2003 v.93 no.5 pp. 596-603
ISSN:
0031-949X
Subject:
plant pathogenic bacteria; fatty acids; ribosomal RNA; Lactuca sativa; plasmids; DNA fingerprinting; internal transcribed spacers; pathotypes; Xanthomonas campestris pv. vitians; restriction fragment length polymorphism; evolution; polymerase chain reaction; strain differences; pathogenicity; chemical composition; geographical variation; genetic variation; gas chromatography; repetitive sequences; California
DOI:
10.1094/PHYTO.2003.93.5.596
PubMed:
18942982

29. Increased frequency of the T929I and L932F mutations associated with knockdown resistance in permethrin-resistant populations of the human head louse, Pediculus capitis, from California, Florida, and Texas

Author:
Gao, Jian-Rong; Yoon, Kyong Sup; Lee, Si Hyeock; Takano-Lee, Miwako; Edman, John D.; Meinking, Terri L.; Taplin, David; Clark, J. Marshall
Source:
Pesticide biochemistry and physiology 2003 v.77 no.3 pp. 115-124
ISSN:
0048-3575
Subject:
DNA; Pediculus humanus capitis; amino acid substitution; bioassays; diagnostic techniques; gene frequency; genes; heterozygosity; homozygosity; insecticide resistance; monitoring; mortality; nerve tissue; nucleotide sequences; pediculosis; permethrin; pests; point mutation; resistance management; sequence analysis; sodium channels; California; Ecuador; Florida; Panama; Texas
Abstract:
... The resistance levels of different human head louse populations from the USA to 1% permethrin were evaluated using permethrin-impregnated, filter paper disk-contact bioassay. Populations from southern California, south Florida and south central Texas showed 1.5-, 3.1-, and 1.5- to 5.1-fold resistance compared to insecticide-susceptible head louse populations from Panama or Ecuador. Permethrin-resi ...
DOI:
10.1016/j.pestbp.2003.08.003

30. Rapid evolution of an established feral tilapia (Oreochromis spp.): the need to incorporate invasion science into regulatory structures

Author:
Costa-Pierce, Barry A.
Source:
Biological invasions 2003 v.5 no.1-2 pp. 71-84
ISSN:
1387-3547
Subject:
DNA; Oreochromis niloticus; databases; evolution; fish; founder effect; genetic markers; hybrids; microsatellite repeats; morphometry; Africa; Asia; California; Colorado River
Abstract:
... Outside of Asia exotic tilapiine fishes (Trewavas 1983) were not imported directly as native genetic resources from Africa but arrived as transits from third or fourth party sources. Founder populations of exotic tilapia species may be morphologically and meristically distinct in Africa but are still reproductively compatible due to their relatively recent divergence. As a result, feral tilapias h ...
DOI:
10.1023/A:1024094606326

31. Resistance to azoxystrobin in Alternaria isolates from pistachio in California

Author:
Ma, Zhonghua; Felts, Dan; Michailides, Themis J.
Source:
Pesticide biochemistry and physiology 2003 v.77 no.2 pp. 66-74
ISSN:
0048-3575
Subject:
Alternaria alternata; Alternaria tenuissima; DNA; DNA primers; Phytophthora infestans; alanine; azoxystrobin; conidia; cytochrome b; fungi; fungicide resistance; genes; germination; orchards; pistachios; polymerase chain reaction; restriction endonucleases; restriction fragment length polymorphism; California
Abstract:
... Failure to control Alternaria late blight in a few California pistachio orchards was observed after only 3–4 years of consecutive applications of azoxystrobin-based fungicide programs. A total of 72 isolates of Alternaria alternata, Alternaria tenuissima, and Alternaria arborescens, the causal organisms of Alternaria late blight, were collected from pistachio orchards with (58 isolates) and withou ...
DOI:
10.1016/j.pestbp.2003.08.002

32. Conserved simple sequence repeats for the Limnanthaceae (Brassicales)

Author:
V. K. Kishore; P. Velasco; D. K. Shintani; J. Rowe; C. Rosato; N. Adair; M. B. Slabaugh; S. J. Knapp
Source:
Theoretical and applied genetics 2004 v.108 no.3 pp. 450-457
ISSN:
0040-5752
Subject:
DNA; DNA libraries; Limnanthes; breeding; chromosome mapping; clones; genetic markers; genomics; haplotypes; loci; microsatellite repeats; oilseeds; British Columbia; California; Oregon
Abstract:
... The Limnanthaceae (Order Brassicales) is a family of 18 taxa of Limnanthes (meadowfoam) native to California, Oregon, and British Columbia. Cultivated meadowfoam (L. alba Benth.), a recently domesticated plant, has been the focus of research and development as an industrial oilseed for three decades. The goal of the present research was to develop several hundred simple sequence repeat (SSR) marke ...
DOI:
10.1007/s00122-003-1447-1

33. Genetic diversity of giant reed (Arundo donax) in the Santa Ana River, California

Author:
Khudamrongsawat Jenjit; Tayyar Rana; Holt Jodie S.
Source:
Weed science 2004 v.52 no.3 pp. 395-405
ISSN:
0043-1745
Subject:
Arundo donax; DNA; asexual reproduction; biological control; gel electrophoresis; genetic variation; habitats; humans; invasive species; isozymes; phenotype; random amplified polymorphic DNA technique; rivers; seeds; starch; watersheds; weed control; California; Pacific Ocean
Abstract:
... Giant reed is one of the most widespread invasive species in riparian habitats in California and other coastal states of the United States. This species is thought to spread primarily asexually by flood dispersal of stem and rhizome pieces; viable seeds have not been found in the United States. Research was conducted to quantify genetic variation in giant reed along the Santa Ana River in Californ ...
DOI:
10.1614/WS-03-120R1

34. Use of antibiotic susceptibility patterns and pulsed-field gel electrophoresis to compare historic and contemporary isolates of multi-drug-resistant Salmonella enterica subsp. enterica serovar Newport

Author:
Berge, A.C.B.; Adaska, J.M.; Sischo, W.M.
Source:
Applied and environmental microbiology 2004 v.70 no.1 pp. 318-323
ISSN:
0099-2240
Subject:
dairy cattle; pulsed-field gel electrophoresis; strains; cattle diseases; bacterial contamination; Salmonella enterica subsp. enterica; DNA; multiple drug resistance; bulk milk; feces; water pollution; human diseases; animal pathogenic bacteria; calves; antibiotics; food contamination; milk tanks; longitudinal studies; salmonellosis; food pathogens; California
Abstract:
... Recently, multi-drug-resistant (MDR) Salmonella enterica subspecies enterica serovar Newport reemerged as a public and animal health problem. The antibiotic resistance of 198 isolates and the pulsed-field gel electrophoresis patterns (PFGE) of 139 isolates were determined. Serovar Newport isolates collected between 1988 and 2001 were included in the study. One hundred seventy-eight isolates were c ...
DOI:
10.1128/AEM.70.1.318-323.2004
PubMed:
14711658
PubMed Central:
PMC321259

35. DNA Fingerprinting of Seeded Bermudagrass Cultivars

Author:
Praveen Nagh Yerramsetty; Michael P. Anderson; Charles M. Taliaferro; Dennis L. Martin
Source:
Crop science 2005 v.45 no.2 pp. 772-777
ISSN:
0011-183X
Subject:
Cynodon dactylon; DNA; DNA fingerprinting; cultivars; forage; genetic background; genetic relationships; genetic variation; germplasm; lawns and turf; new variety; tropics; Arizona; California; Colorado River; Yukon Territory
Abstract:
... Bermudagrasses (Cynodon spp.) are important for turf and forage in temperate and tropical climates, with cultivars historically propagated clonally. Over the past two decades the number of seed-propagated commercial cultivars has dramatically increased, but information is lacking on the extent of the genetic diversity among these new cultivars. Accordingly, this research was undertaken to assess t ...
DOI:
10.2135/cropsci2005.0772

36. Limited realized dispersal and introgressive hybridization influence genetic structure and conservation strategies for brown rockfish, Sebastes auriculatus

Author:
Buonaccorsi, Vincent P.; Kimbrell, Carol A.; Lynn, Eric A.; Vetter, Russell D.
Source:
Conservation genetics 2005 v.6 no.5 pp. 697-713
ISSN:
1566-0621
Subject:
fisheries management; founder effect; marine fish; endangered species; inland waters; ancestry; DNA; Sebastes; reserve networks; rockfish; sounds; larvae; population size; habitats; adults; introgression; Oregon; Mexico; California
Abstract:
... Understanding patterns of connectivity among marine fish populations with demersal adults and pelagic larvae is critical for effective conservation of west coast rockfishes. The brown rockfish (Sebastes auriculatus) occurs in nearshore habitat and is common from northern Baja California, Mexico to northern California, rare off the outer coast of Oregon and Washington and again common in the inland ...
DOI:
10.1007/s10592-005-9029-1

37. Pollen-Mediated Gene Flow in California Cotton Depends on Pollinator Activity

Author:
Allen E. Van Deynze; Frederick J. Sundstrom; Kent J. Bradford
Source:
Crop science 2005 v.45 no.4 pp. 1565-1570
ISSN:
0011-183X
Subject:
Apis mellifera; DNA; Gossypium hirsutum; bioassays; cotton; gene flow; herbicide resistance; herbicides; honey bees; pollen flow; pollinators; seedlings; California; Southeastern United States
Abstract:
... Many cotton (Gossypium hirsutum L.) pollination studies have been performed in the southern USA, but no data exist for California. In this study, we measured pollen-mediated gene flow (PGF) in four directions over 2 yr from herbicide-resistant source plots in upland cotton in the California cotton growing region and in a region with high pollinator activity. In addition, samples were taken from fi ...
DOI:
10.2135/cropsci2004.0463

38. Relatedness of Listeria monocytogenes Isolates Recovered from Selected Ready-To-Eat Foods and Listeriosis Patients in the United States

Author:
Gilbreth, Stefanie Evans; Call, Jeff E.; Wallace, F. Morgan; Scott, Virginia N.; Chen, Yuhuan; Luchansky, John B.
Source:
Applied and environmental microbiology 2005 v.71 no.12 pp. 8115-8122
ISSN:
0099-2240
Subject:
bacterial contamination; listeriosis; serotypes; food contamination; DNA; animal pathogenic bacteria; food pathogens; foodborne illness; pulsed-field gel electrophoresis; Listeria monocytogenes; ready-to-eat foods; Maryland; California
Abstract:
... Pulsed-field gel electrophoresis and serotyping were performed for 544 isolates of Listeria monocytogenes, including 502 isolates recovered from contaminated samples from 31,705 retail ready-to-eat (RTE) food products and 42 isolates recovered from human cases of listeriosis. The isolates were from Maryland (294 isolates) and California (250 isolates) and were collected in 2000 and 2001. The isola ...
Handle:
10113/19972
DOI:
10.1128/AEM.71.12.8115-8122.2005
PubMed:
16332793
PubMed Central:
PMC1317336

39. Assessing reliability of microsatellite genotypes from kit fox faecal samples using genetic and GIS analyses

Author:
Smith, D.A.; Ralls, K.; Hurt, A.; Adams, B.; Parker, M.; Maldonado, J.E.
Source:
Molecular ecology 2006 v.15 no.2 pp. 387-406
ISSN:
0962-1083
Subject:
DNA; endangered species; feces; foxes; genotype; genotyping; geographic information systems; microsatellite repeats; monitoring
Abstract:
... Noninvasive faecal DNA sampling has the potential to provide a wealth of information necessary for monitoring and managing endangered species while eliminating the need to capture, handle or observe rare individuals. However, scoring problems, and subsequent genotyping errors, associated with this monitoring method remain a great concern as they can lead to misidentification of individuals and bia ...
DOI:
10.1111/j.1365-294X.2005.02841.x
PubMed:
16448408

40. Cloning of the mating type locus from Ascochyta lentis (teleomorph: Didymella lentis) and development of a multiplex PCR mating assay for Ascochyta species

Author:
Chérif, Mohamed; Chilvers, Martin I.; Akamatsu, Hajime; Peever, Tobin L.; Kaiser, Walter J.
Source:
Current genetics 2006 v.50 no.3 pp. 203-215
ISSN:
0172-8083
Subject:
loci; epidemiology; DNA primers; DNA; polymerase chain reaction; Didymella; Ascochyta rabiei; crossing; Ascochyta lentis; population structure; pathogens; fungi; California
Abstract:
... The mating type (MAT) locus of the lentil pathogen, Ascochyta lentis, was cloned and characterized using thermal asymmetric interlaced and inverse PCR with primers designed to the HMG-box of Ascochyta rabiei. A multiplex PCR assay for mating type was developed based on MAT idiomorph and flanking sequences. Primers were designed to specifically amplify MAT from several Ascochyta spp. including A. p ...
DOI:
10.1007/s00294-006-0085-y
PubMed:
16847660

41. DNA screening reveals pink bollworm resistance to Bt cotton remains rare after a decade of exposure

Author:
Tabashnik, B.E.; Fabrick, J.A.; Henderson, S.; Biggs, R.W.; Yafuso, C.M.; Nyboer, M.E.; Manhardt, N.M.; Coughlin, L.A.; Sollome, J.; Carrière, Y.
Source:
Journal of economic entomology 2006 v.99 no.5 pp. 1525-1530
ISSN:
0022-0493
Subject:
Pectinophora gossypiella; Gossypium hirsutum; cotton; transgenic plants; genetic resistance; alleles; cadherins; DNA; screening; DNA primers; polymerase chain reaction; resistance management; Arizona; California; Texas
Abstract:
... Transgenic crops producing toxins from the bacterium Bacillus thuringiensis (Bt) kill insect pests and can reduce reliance on insecticide sprays. Although Bt cotton (Gossypium hirsutum L.) and Bt corn (Zea mays L.) covered 26 million ha worldwide in 2005, their success could be cut short by evolution of pest resistance. Monitoring the early phases of pest resistance to Bt crops is crucial, but it ...
Handle:
10113/1111
DOI:
10.1603/0022-0493-99.5.1525
PubMed:
17066779

42. Dissimilatory Arsenate and Sulfate Reduction in Sediments of Two Hypersaline, Arsenic-Rich Soda Lakes: Mono and Searles Lakes, California

Author:
Kulp, T.R.; Hoeft, S.E.; Miller, L.G.; Saltikov, C.; Murphy, J.N.; Han, S.; Lanoil, B.; Oremland, R.S.
Source:
Applied and environmental microbiology 2006 v.72 no.10 pp. 6514-6526
ISSN:
0099-2240
Subject:
DNA; arsenates; clones; denaturing gradient gel electrophoresis; genes; lakes; polymerase chain reaction; radionuclides; ribosomal RNA; salinity; sediments; sulfates; California
Abstract:
... A radioisotope method was devised to study bacterial respiratory reduction of arsenate in sediments. The following two arsenic-rich soda lakes in California were chosen for comparison on the basis of their different salinities: Mono Lake (~90 g/liter) and Searles Lake (~340 g/liter). Profiles of arsenate reduction and sulfate reduction were constructed for both lakes. Reduction of [73As]arsenate o ...
DOI:
10.1128/AEM.01066-06
PubMed:
17021200
PubMed Central:
PMC1610296

43. Genetic and Phenotypic Variability among Salmonella enterica Serovar Typhimurium Isolates from California Dairy Cattle and Humans

Author:
Adaska, J.M.; Silva, A.J.; Berge, A.C.B.; Sischo, W.M.
Source:
Applied and environmental microbiology 2006 v.72 no.10 pp. 6632-6637
ISSN:
0099-2240
Subject:
human diseases; humans; antibiotic resistance; ribotypes; Salmonella Typhimurium; bacteriophages; dairy cattle; plasmids; salmonellosis; pulsed-field gel electrophoresis; DNA fingerprinting; strains; microbial genetics; transposons; infection; California
Abstract:
... Fifty-six human and 24 adult dairy cattle isolates of Salmonella enterica serovar Typhimurium from a single county in California were compared using ribotyping, insertion sequence typing (IS200), pulsed-field gel electrophoresis, plasmid typing, phage typing, and antimicrobial resistance testing. The majority of the isolates fell into one of two groups which were phage types DT104 and DT193. Combi ...
DOI:
10.1128/AEM.01038-06
PubMed:
17021214
PubMed Central:
PMC1610315

44. Genotype diversity of Salsola tragus and potential origins of a previously unidentified invasive Salsola from California and Arizona

Author:
Gaskin, J.F.; Ryan, F.J.; Hrusa, G.F.; Londo, J.P.
Source:
Madroño 2006 v.53 no.3 pp. 244-251
ISSN:
0024-9637
Subject:
DNA; Salsola tragus; biological control; biological control agents; genotype; introns; invasive species; molecular systematics; plant taxonomy; sympatric speciation; weeds; Arizona; California; Southern Africa
Abstract:
... Various Salsola spp. have been introduced to the USA, and some of these are considered noxious or invasive in certain regions. The genus is taxonomically challenging, and recent morphological, cytological, and molecular work has shown that an unknown taxon, previously identified as S. tragus, but recently temporarily designated as Type B, with unknown origins, exists in California and Arizona. Typ ...
Handle:
10113/59139
DOI:
10.3120/0024-9637(2006)53[244:GDOSTA]2.0.CO;2

45. MHC gene configuration variation in geographically disparate populations of California sea lions (Zalophus californianus)

Author:
Bowen, L.; Aldridge, B.M.; Delong, R.; Melin, S.; Godinez, C.; Zavala, A.; Gulland, F.; Lowenstine, L.; Stott, J.L.; Johnson, M.L.
Source:
Molecular ecology 2006 v.15 no.2 pp. 529-533
ISSN:
0962-1083
Subject:
DNA; Zalophus; animals; emerging diseases; genotype; geographical variation; islands; major histocompatibility complex; California; Gulf of California; Pacific Ocean
Abstract:
... Major histocompatibility complex (MHC) class II DRB genotypes were examined in two geographically isolated populations of California sea lions (Zalophus californianus) (Gulf of California and California coastal Pacific Ocean). Genomic DNA from 227 California sea lions was examined using eight sequence-specific primer (SSP) pairs flanking the putative peptide-binding site. A total of 40 different Z ...
DOI:
10.1111/j.1365-294X.2005.02612.x
PubMed:
16448418

46. Phylogenetic Comparisons of Bacterial Communities from Serpentine and Nonserpentine Soils

Author:
Oline, David K.
Source:
Applied and environmental microbiology 2006 v.72 no.11 pp. 6965-6971
ISSN:
0099-2240
Subject:
DNA; DNA libraries; bacterial communities; biogeography; clones; community structure; forest soils; phylogeny; ribosomal RNA; serpentine soils; soil ecology; soil surveys; California; Oregon
Abstract:
... I present the results of a culture-independent survey of soil bacterial communities from serpentine soils and adjacent nonserpentine comparator soils using a variety of newly developed phylogenetically based statistical tools. The study design included site-based replication of the serpentine-to-nonserpentine community comparison over a regional scale (~100 km) in Northern California and Southern ...
DOI:
10.1128/AEM.00690-06
PubMed:
16950906
PubMed Central:
PMC1636195

47. Salivary DNA Evidence Convicts Breeding Male Coyotes of Killing Sheep

Author:
BLEJWAS KAREN M.; WILLIAMS CHRISTEN L.; SHIN GARY T.; McCULLOUGH DALE R.; JAEGER MICHAEL M.
Source:
journal of wildlife management 2006 v.70 no.4 pp. 1087-1093
ISSN:
0022-541X
Subject:
wildlife-livestock relations; sheep; predation; mortality; Canis latrans; salivary glands; DNA; animal genetics; predators; animal identification; wildlife management; California
Abstract:
... Resolving conflicts between predators and livestock producers depends on obtaining reliable information about the predators that kill livestock. We used salivary DNA obtained from attack wounds on domestic sheep carcasses to identify the species of predator responsible for the kill, as well as the sex and individual identity of coyotes (Canis latrans) that killed sheep. Coyotes killed 36 of 37 dep ...
Handle:
10113/15501
DOI:
10.2193/0022-541X(2006)70[1087:SDECBM]2.0.CO;2

48. Sulfide Oxidation Coupled to Arsenate Reduction by a Diverse Microbial Community in a Soda Lake

Author:
Hollibaugh, James T.; Budinoff, Charles; Hollibaugh, Ryan A.; Ransom, Briana; Bano, Nasreen
Source:
Applied and environmental microbiology 2006 v.72 no.3 pp. 2043-2049
ISSN:
0099-2240
Subject:
DNA; Desulfobulbaceae; arsenates; genes; lakes; microbial communities; mixed culture; nucleotide sequences; oxidation; sulfides; California
Abstract:
... We characterized the arsenate-reducing, sulfide-oxidizing population of Mono Lake, California, by analyzing the distribution and diversity of rrnA, cbbL, and dissimilatory arsenate reductase (arrA) genes in environmental DNA, arsenate-plus sulfide-amended lake water, mixed cultures, and isolates. The arsenate-reducing community was diverse. An organism represented by an rrnA sequence previously re ...
DOI:
10.1128/AEM.72.3.2043-2049.2006
PubMed:
16517653
PubMed Central:
PMC1393214

49. TaqMan Chemistry for Phytophthora ramorum Detection and Quantification, with a Comparison of Diagnostic Methods

Author:
Hayden, K.; Ivors, K.; Wilkinson, C.; Garbelotto, M.
Source:
Phytopathology 2006 v.96 no.8 pp. 846-854
ISSN:
0031-949X
Subject:
Quercus; forest trees; Umbellularia californica; fungal diseases of plants; Phytophthora ramorum; plant pathogenic fungi; pathogenicity; leaves; disease detection; disease diagnosis; diagnostic techniques; nucleases; quantitative analysis; genes; DNA; polymerase chain reaction; California
Abstract:
... The choice of detection method for phytopathogens can be critically important in determining the success or failure of pest regulation systems. We present an assay for Phytophthora ramorum that uses 5' fluorogenic exonuclease (TaqMan) chemistry to detect and quantify the pathogen from diseased tissue, and include a universal primer and probe set for an internal positive control. This method is sen ...
DOI:
10.1094/PHYTO-96-0846
PubMed:
18943749

50. Use of Quantitative Real-Time PCR to Investigate the Dynamics of the Red Tide Dinoflagellate Lingulodinium polyedrum

Author:
Moorthi, Stefanie D.; Countway, Peter D.; Stauffer, Beth A.; Caron, David A.
Source:
Microbial ecology 2006 v.52 no.1 pp. 136-150
ISSN:
0095-3628
Subject:
microscopy; algal blooms; ribosomal RNA; quantitative analysis; trademarks; DNA; polymerase chain reaction; ecology; cell division; seawater; genes; phototaxis; photophase; coastal water
Abstract:
... A new method based on quantitative real-time polymerase chain reaction (qPCR) was developed and applied to quantify the red tide dinoflagellate Lingulodinium polyedrum in natural seawater samples and in laboratory cultures. The method uses a Molecular Beacon[trade mark sign] approach to target a species-specific region of the small subunit ribosomal RNA gene. The accuracy of the method was verifie ...
DOI:
10.1007/s00248-006-9030-3
PubMed:
16691324

51. Detection and Transformation of Genome Segments That Differ within a Coastal Population of Vibrio cholerae Strains

Author:
Miller, Michael C.; Keymer, Daniel P.; Avelar, Abigail; Boehm, Alexandria B.; Schoolnik, Gary K.
Source:
Applied and environmental microbiology 2007 v.73 no.11 pp. 3695-3704
ISSN:
0099-2240
Subject:
DNA; Vibrio cholerae; cholera; chromosomes; clones; coasts; ecosystems; gene transfer; habitats; hybridization; mannose; multigene family; nucleotide sequences; pathogenesis; phenotype; California
Abstract:
... Vibrio cholerae is an autochthonous member of diverse aquatic ecosystems around the globe. Collectively, the genomes of environmental V. cholerae strains comprise a large repository of encoded functions which can be acquired by individual V. cholerae lineages through uptake and recombination. To characterize the genomic diversity of environmental V. cholerae, we used comparative genome hybridizati ...
DOI:
10.1128/AEM.02735-06
PubMed:
17449699
PubMed Central:
PMC1932674

52. Detection of Rickettsia rickettsii and Bartonella henselae in Rhipicephalus sanguineus Ticks from California

Author:
Wikswo, M.E.; Hu, R.; Metzger, M.E.; Eremeeva, M.E.
Source:
Journal of medical entomology 2007 v.44 no.1 pp. 158-162
ISSN:
0022-2585
Subject:
ticks; Rickettsia rickettsii; disease detection; disease vectors; cat scratch disease; Rhipicephalus sanguineus; DNA; polymerase chain reaction; Rocky Mountain spotted fever; Bartonella henselae; infection; California
Abstract:
... Sixty-two questing adult Rhipicephalus sanguineus (Latreille) ticks were collected by direct removal from blades of turfgrass and adjacent concrete walkways at a suburban home in Riverside County, CA, and tested for the presence of Rickettsia, Bartonella, and Ehrlichia DNA. Polymerase chain reaction (PCR) was used to amplify fragments of the 17-kDa antigen gene and the rOmpA gene of the spotted fe ...
DOI:
10.1603/0022-2585(2007)44[158:DORRAB]2.0.CO;2
PubMed:
17294935

53. First Report of Cylindrocarpon liriodendri Causing Black Foot Disease of Grapevine in California

Author:
Petit, E.; Gubler, W.D.
Source:
Plant disease 2007 v.91 no.8 pp. 1060
ISSN:
0191-2917
Subject:
host range; Neonectria; grapes; signs and symptoms (plants); fungal diseases of plants; host plants; phylogeny; ribosomal DNA; internal transcribed spacers; disease outbreaks; pathogen identification; molecular systematics; genes; Vitis vinifera; microbial genetics; new geographic records; disease diagnosis; California
DOI:
10.1094/PDIS-91-8-1060A

54. How repeatable are associations between polymorphisms in achaete-scute and bristle number variation in Drosophila?

Author:
Gruber, J.D.; Genissel, A.; Macdonald, S.J.; Long, A.D.
Source:
Genetics 2007 v.175 no.4 pp. 1987-1997
ISSN:
0016-6731
Subject:
Drosophila melanogaster; setae (animal); phenotype; phenotypic variation; genetic polymorphism; genes
DOI:
10.1534/genetics.106.067108
PubMed:
17277365
PubMed Central:
PMC1855119

55. Inferring Geographic Isolation of Wolverines in California Using Historical DNA

Author:
SCHWARTZ MICHAEL K.; AUBRY KEITH B.; MCKELVEY KEVIN S.; PILGRIM KRISTINE L.; COPELAND JEFFREY P.; SQUIRES JOHN R.; INMAN ROBERT M.; WISELY SAMANTHA M.; RUGGIERO LEONARD F.
Source:
journal of wildlife management 2007 v.71 no.7 pp. 2170-2179
ISSN:
0022-541X
Subject:
history; species reintroduction; haplotypes; mitochondrial DNA; spatial distribution; phylogeny; wildlife habitats; population genetics; forest habitats; population dynamics; Gulo gulo; California
Abstract:
... Delineating a species' geographic range using the spatial distribution of museum specimens or even contemporary detection––non-detection data can be difficult. This is particularly true at the periphery of a species range where species' distributions are often disjunct. Wolverines (Gulo gulo) are wide-ranging mammals with discontinuous and potentially isolated populations at the periphery of their ...
Handle:
10113/8129
DOI:
10.2193/2007-026

56. Population structure and colony composition of two Zootermopsis nevadensis subspecies

Author:
Aldrich, B.T.; Kambhampati, S.
Source:
Heredity 2007 v.99 no.4 pp. 443-451
ISSN:
0018-067X
Subject:
Termopsidae; insect colonies; population structure; insect genetics; microsatellite repeats; loci; worker insects; soldier insects; population genetics; California
Abstract:
... Understanding the origin and maintenance of eusociality in termites has proved problematic, in part, due to a lack of knowledge concerning the variability and evolutionary changes in termite breeding structure. One way to address this is to compare the population genetics of a broad range of termite species. However, few studies have investigated the population genetics of basal termite taxa. We u ...
DOI:
10.1038/sj.hdy.6801022
PubMed:
17611493

57. The Genetics of Adaptive Coat Color in Gophers: Coding Variation at Mc1r Is Not Responsible for Dorsal Color Differences

Author:
Wlasiuk, Gabriela; Nachman, Michael W.
Source:
Journal of heredity 2007 v.98 no.6 pp. 567-574
ISSN:
0022-1503
Subject:
Thomomys bottae; alpha-melanocyte-stimulating hormone; color; fur; genes; gophers; loci; phenotypic variation; pigmentation; predation; soil color
Abstract:
... The genetics of adaptation is a key problem in evolutionary biology. Pocket gophers of the species Thomomys bottae provide one of the most striking examples of coat color variation in mammals. Dorsal pelage color is strongly correlated with soil color across the range of the species, presumably reflecting the selective pressure exerted by predation. To investigate the genetic basis of coat color v ...
DOI:
10.1093/jhered/esm059
PubMed:
17646275
PubMed Central:
PMC2936272

58. The new alkaliphilic bacteriochlorophyll a-containing bacterium Roseinatronobacter monicus sp. nov. from the hypersaline Soda Mono Lake (California, United States)

Author:
E. N. Boldareva; I. A. Bryantseva; A. Tsapin; K. Nelson; D. Yu. Sorokin; T. P. Tourova; V. A. Boichenko; I. N. Stadnichuk; V. M. Gorlenko
Source:
Microbiology 2007 v.76 no.1 pp. 82-92
ISSN:
0026-2617
Subject:
DNA; Gram-negative bacteria; Roseinatronobacter thiooxidans; absorption; carotenoids; genes; lakes; new species; nucleic acid hybridization; nucleotide sequences; pH; pigments; polyphosphates; ribosomal RNA; sodium chloride; sulfates; temperature; thiosulfates; wavelengths; California
Abstract:
... Two strains of pink-colored aerobic bacteriochlorophyll a-containing bacteria were isolated from aerobic (strain ROS 10) and anaerobic (strain ROS 35) zones of the water column of Mono Lake (California, United States). Cells of the bacteria were nonmotile oval gram-negative rods multiplying by binary fission by means of a constriction. No intracellular membranes were detected. Polyphosphates and p ...
DOI:
10.1134/S0026261707010122

59. Detection of Blastocystis from stool samples using real-time PCR

Author:
Jones II, Morris Saffold; Ganac, Robert D.; Hiser, Greg; Hudson, N. Ryan; Le, Andy; Whipps, Christopher M.
Source:
Parasitology research 2008 v.103 no.3 pp. 551-557
ISSN:
0932-0113
Subject:
Bifidobacterium adolescentis; Blastocystis; DNA; Enterococcus faecalis; Escherichia coli; Fusobacterium; Lactobacillus acidophilus; Ruminococcus hansenii; Staphylococcus aureus; detection limit; genome; military personnel; ova; parasites; quantitative polymerase chain reaction; California; Oregon
Abstract:
... We developed a real-time LC PCR assay to detect a 152 bp sequence in an uncharacterized region of the Blastocystis genome. The described assay detected 11 of 11 ATCC strains of Blastocystis from subtypes 1, 3, and 4. Three of three stool samples from Oregon and California military personnel that were negative for Blastocystis by an ova and parasite test as well as a conventional PCR assay were pos ...
DOI:
10.1007/s00436-008-1006-4
PubMed:
18488250

60. EST-SSR markers for asparagus genetic diversity evaluation and cultivar identification

Author:
Caruso, Marco; Federici, Claire T.; Roose, Mikeal L.
Source:
Molecular breeding 2008 v.21 no.2 pp. 195-204
ISSN:
1380-3743
Subject:
DNA; cladodes; cultivar identification; cultivars; databases; expressed sequence tags; gene frequency; genetic variation; genotyping; germplasm; loci; microsatellite repeats; new variety; polymerase chain reaction; principal component analysis; California
Abstract:
... Simple sequence repeat (SSR) markers generated from expressed sequence tag (EST) sequences represent useful tools for genotyping and their development is relatively easy because of the public availability of EST databases. We report design and application of EST-SSRs to assess the level of genetic diversity among thirty-five asparagus cultivars and to fingerprint DePaoli, a new variety released by ...
DOI:
10.1007/s11032-007-9120-z

61. Eelgrass Meadows in the California Channel Islands and Adjacent Coast Reveal a Mosaic of Two Species, Evidence for Introgression and Variable Clonality

Author:
Coyer, J.A.; Miller, K.A.; Engle, J.M.; Veldsink, J.; Cabello-Pasini, A.; Stam, W.T.; Olsen, J.L.
Source:
Annals of botany 2008 v.101 no.1 pp. 73-87
ISSN:
0305-7364
Subject:
ice; microsatellite repeats; taxonomy; islands; sea level; DNA; marine environment; internal transcribed spacers; Zostera marina; environmental factors; genes; genotype; coasts; eutrophication; genetic variation; introgression; Mexico; California
Abstract:
... BACKGROUND AND AIMS: Seagrasses are important facilitator species in shallow, soft-bottom marine environments worldwide and, in many places, are threatened by coastal development and eutrophication. One narrow-leaved species (Zostera marina) and one wide-leaved species, variously designated as Z. marina, Z. pacifica or Z. asiatica, are found off the California Channel Islands and adjacent Californ ...
DOI:
10.1093/aob/mcm288
PubMed:
18006507
PubMed Central:
PMC2701847

62. Evaluation of Squirrels (Rodentia: Sciuridae) as Ecologically Significant Hosts for Anaplasma phagocytophilum in California

Author:
Nieto, N.C.; Foley, J.E.
Source:
Journal of medical entomology 2008 v.45 no.4 pp. 763-769
ISSN:
0022-2585
Subject:
epidemiological studies; disease reservoirs; human diseases; Tamiasciurus; Spermophilus beecheyi; emerging diseases; anaplasmosis; wildlife diseases; disease transmission; risk assessment; Ixodes; Sciurus carolinensis; seroconversion; Glaucomys; Tamias; Anaplasma phagocytophilum; tick infestations; California
Abstract:
... Granulocytic anaplasmosis (GA), caused by Anaplasma phagocytophilum, is a potentially fatal, emerging rickettsial disease of humans, domestic animals, and wildlife. The purpose of this study was to determine whether sciurids from multiple areas of northern California were infested with ticks or exposed to or infected with A. phagocytophilum using polymerase chain reaction (PCR) and indirect-fluore ...
DOI:
10.1603/0022-2585(2008)45[763:EOSRSA]2.0.CO;2
PubMed:
18714881

63. Halophilic Archaea determined from geothermal steam vent aerosols

Author:
Ellis, Dean G.; Bizzoco, Richard W.; Kelley, Scott T.
Source:
Environmental microbiology 2008 v.10 no.6 pp. 1582-1590
ISSN:
1462-2912
Subject:
DNA; Haloarcula; aerosols; laboratory techniques; lakes; leaching; microbial ecology; microorganisms; minerals; saline soils; salt tolerance; salts; steam; temperature; viability; volcanic rocks; California; Hawaii; New Mexico; Russia; Wyoming
Abstract:
... Hydrothermal vents, known as 'fumaroles', are ubiquitous features of geothermal areas. Although their geology has been extensively characterized, little is known about the subsurface microbial ecology of fumaroles largely because of the difficulty in collecting sufficient numbers of cells from boiling steam water for DNA extraction and culture isolation. Here we describe the first collection, mole ...
DOI:
10.1111/j.1462-2920.2008.01574.x
PubMed:
18331336

64. Identifying the predator complex of Homalodisca vitripennis (Hemiptera: Cicadellidae): a comparative study of the efficacy of an ELISA and PCR gut content assay

Author:
Fournier, Valerie; Hagler, James; Daane, Kent; de León, Jesse; Groves, Russell
Source:
Oecologia 2008 v.157 no.4 pp. 629-640
ISSN:
0029-8549
Subject:
Homalodisca vitripennis; predatory arthropods; predator-prey relationships; predation; detection; qualitative analysis; analytical methods; enzyme-linked immunosorbent assay; monoclonal antibodies; mitochondrial DNA; cytochrome-c oxidase; genetic markers; polymerase chain reaction; taxonomy
Abstract:
... A growing number of ecologists are using molecular gut content assays to qualitatively measure predation. The two most popular gut content assays are immunoassays employing pest-specific monoclonal antibodies (mAb) and polymerase chain reaction (PCR) assays employing pest-specific DNA. Here, we present results from the first study to simultaneously use both methods to identify predators of the gla ...
Handle:
10113/20447
DOI:
10.1007/s00442-008-1095-x
PubMed:
18618149

65. Influence of habitat discontinuity, geographical distance, and oceanography on fine-scale population genetic structure of copper rockfish (Sebastes caurinus)

Author:
JOHANSSON, M.L.; BANKS, M.A.; GLUNT, K.D.; HASSEL-FINNEGAN, H.M.; BUONACCORSI, V.P.
Source:
Molecular ecology 2008 v.17 no.13 pp. 3051-3061
ISSN:
0962-1083
Subject:
DNA; Sebastes caurinus; adults; coasts; founder effect; gene flow; habitats; juveniles; larvae; loci; microsatellite repeats; models; oceanography; population size; California; Oregon; Washington (state)
Abstract:
... The copper rockfish is a benthic, nonmigratory, temperate rocky reef marine species with pelagic larvae and juveniles. A previous range-wide study of the population-genetic structure of copper rockfish revealed a pattern consistent with isolation-by-distance. This could arise from an intrinsically limited dispersal capability in the species or from regularly-spaced extrinsic barriers that restrict ...
DOI:
10.1111/j.1365-294X.2008.03814.x
PubMed:
18522692

66. Landscape characteristics influence morphological and genetic differentiation in a widespread raptor (Buteo jamaicensis)

Author:
HULL, JOSHUA M.; HULL, ANGUS C.; SACKS, BENJAMIN N.; SMITH, JEFF P.; ERNEST, HOLLY B.
Source:
Molecular ecology 2008 v.17 no.3 pp. 810-824
ISSN:
0962-1083
Subject:
Buteo jamaicensis; basins; birds of prey; breeding sites; dry environmental conditions; genetic variation; habitat preferences; habitats; hawks; landscapes; microsatellite repeats; mountains; population density; topographic slope; California; Oregon; Rocky Mountain region; Texas; Washington (state)
Abstract:
... Landscape-scale population genetic structure in vagile vertebrates was commonly considered to be a contradiction in terms whereas recent studies have demonstrated behaviour and habitat associated structure in several such species. We investigate whether landscape features influence morphological and genetic differentiation in a widespread, mobile raptor. To accurately describe genetic differentiat ...
DOI:
10.1111/j.1365-294X.2007.03632.x
PubMed:
18208488

67. Molecular evidence for a novel Coxiella from Argas monolakensis (Acari: Argasidae) from Mono Lake, California, USA

Author:
Reeves, Will K.
Source:
Experimental & applied acarology 2008 v.44 no.1 pp. 57-60
ISSN:
0168-8162
Subject:
Argas; ticks; disease vectors; Coxiella; Rickettsia; DNA; disease detection; sequence homology; pathogen identification; rickettsial diseases; molecular epidemiology; California
Abstract:
... Argasid ticks are vectors of viral and bacterial agents of humans and animals. Recent reports indicate that some ornithophilic argasids harbored rickettsial agents. A Nearctic tick, Argas monolakensis Schwan, Corwin, Brown is ornithophilic and has not previously been examined for rickettsial agents. Thirty adult A. monolakensis were tested by PCR for DNA from Rickettsia or Coxiella. Amplicons from ...
Handle:
10113/32371
DOI:
10.1007/s10493-008-9128-z
PubMed:
18247143

68. Patterns of Genetic Variation Between the Checkered Skippers Pyrgus communis and Pyrgus albescens (Lepidoptera: Hesperiidae)

Author:
Fordyce, J.A.; Forister, M.L.; Nice, C.C.; Burns, J.M.; Shapiro, A.M.
Source:
Annals of the Entomological Society of America 2008 v.101 no.4 pp. 794-800
ISSN:
0013-8746
Subject:
male genitalia; sequence analysis; insect morphology; interspecific variation; insect taxonomy; geographical distribution; haplotypes; Hesperiidae; mitochondrial DNA; nuclear genome; molecular systematics; butterflies; phylogeography; genetic variation; Sierra Nevada (California); California
Abstract:
... We examined patterns of genetic variation between the transcontinental species Pyrgus communis (Grote) and Pyrgus albescens Plötz (Hesperiidae) to examine whether patterns of molecular variation are congruent with the taxonomy. Sequence data from mitochondrial DNA and nuclear DNA failed to distinguish the two taxa. Although substantial genetic variation is explained by the two nominal taxa, more ...
DOI:
10.1603/0013-8746(2008)101[794:POGVBT]2.0.CO;2

69. Phylogenetic Diversity and Molecular Detection of Bacteria in Gull Feces

Author:
Lu, Jingrang; Santo Domingo, Jorge W.; Lamendella, Regina; Edge, Thomas; Hill, Stephen
Source:
Applied and environmental microbiology 2008 v.74 no.13 pp. 3969-3976
ISSN:
0099-2240
Subject:
DNA; Laridae; aquatic communities; bacteria; bacterial communities; digestive system; feces; genes; mammals; molecular cloning; phylogeny; polymerase chain reaction; public health; ribosomal RNA; water pollution; waterfowl; California; Canada; Georgia; Lake Erie; Lake Michigan; Lake Ontario; Ohio; Wisconsin
Abstract:
... In spite of increasing public health concerns about the potential risks associated with swimming in waters contaminated with waterfowl feces, little is known about the composition of the gut microbial community of aquatic birds. To address this, a gull 16S rRNA gene clone library was developed and analyzed to determine the identities of fecal bacteria. Analysis of 282 16S rRNA gene clones demonstr ...
DOI:
10.1128/AEM.00019-08
PubMed:
18469128
PubMed Central:
PMC2446513

70. Range-wide genetic homogeneity in the California sea mussel (Mytilus californianus): a comparison of allozymes, nuclear DNA markers, and mitochondrial DNA sequences

Author:
ADDISON, JASON A.; ORT, BRIAN S.; MESA, KATHRYN A.; POGSON, GRANT H.
Source:
Molecular ecology 2008 v.17 no.19 pp. 4222-4232
ISSN:
0962-1083
Subject:
DNA; Mytilus californianus; allozymes; females; gene flow; genetic markers; genetic variation; genotyping; habitats; males; mitochondrial genome; mussels; nuclear genome; nucleotide sequences; California
Abstract:
... We tested for genetic differentiation among six populations of California sea mussels (Mytilus californianus) sampled across 4000 km of its geographical range by comparing patterns of variation at four independent types of genetic markers: allozymes, single-copy nuclear DNA markers, and DNA sequences from the male and female mitochondrial genomes. Despite our extensive sampling and genotyping effo ...
DOI:
10.1111/j.1365-294X.2008.03905.x
PubMed:
19378402

71. Sewage and community shower drains are environmental reservoirs of Fusarium solani species complex group 1, a human and plant pathogen

Author:
Mehl, H.L.; Epstein, L.
Source:
Environmental microbiology 2008 v.10 no.1 pp. 219-227
ISSN:
1462-2912
Subject:
Cucurbitaceae; DNA; Fusarium solani; epidemiology; fruits; fungi; hospitals; human diseases; humans; phylogeny; plant pathogens; polymerase chain reaction; races; sewage; wastewater treatment; California
Abstract:
... In two recent studies, clinical isolates in the Fusarium solani species complex (FSSC) were sequenced; one of the most common lineages was FSSC Group 1 (FSSC 1), a phylogenetic species that is synonymous with F. solani f. sp. cucurbitae race 2, a pathogen of cucurbit fruits. FSSC 1 was also identified in sink and shower drains in two hospitals. The environmental sources of FSSC 1 are important for ...
DOI:
10.1111/j.1462-2920.2007.01446.x
PubMed:
17916080

72. The Polydora cornuta complex (Annelida: Polychaeta) contains populations that are reproductively isolated and genetically distinct

Author:
Rice, Stanley A.; Karl, Stephen; Rice, Katherine A.
Source:
Invertebrate biology 2008 v.127 no.1 pp. 45-64
ISSN:
1077-8306
Subject:
DNA; Polychaeta; cytochrome-c oxidase; eggs; females; genetic distance; hybridization; larvae; males; nucleotide sequences; reproductive traits; California; Florida; Maine; New Zealand
Abstract:
... We have collected evidence that the nominal species, Polydora cornuta B osc 1802, contains at least three separate species in North America. Specimens of P. cornuta were collected in California, Florida, and Maine, raised in the laboratory, and assessed for reproductive compatibility, genetic similarity, gamete characteristics, and developmental rates. Reproductive crosses between each combination ...
DOI:
10.1111/j.1744-7410.2007.00104.x

73. Distribution and diversity of the enterococcal surface protein (esp) gene in animal hosts and the Pacific coast environment

Author:
Layton, B.A.; Walters, S.P.; Boehm, A.B.
Source:
Journal of applied microbiology 2009 v.106 no.5 pp. 1521-1531
ISSN:
1364-5072
Subject:
DNA; Enterococcus faecium; beaches; birds; coasts; feces; genes; genetic markers; groundwater; host specificity; hosts; mammals; nucleotide sequences; polymerase chain reaction; sand; screening; sequence analysis; storms; surface proteins; California
Abstract:
... This study sought to evaluate the distribution of the enterococcal surface protein (esp) gene in Enterococcus faecium in the Pacific coast environment as well as the distribution and diversity of the gene in Northern California animal hosts. Over 150 environmental samples from the Pacific coast environment (sand, surf zone, fresh/estuarine, groundwater, and storm drain) were screened for the esp g ...
DOI:
10.1111/j.1365-2672.2008.04113.x
PubMed:
19187132

74. Genetic relationships of tui chub populations in the northwestern Great Basin and conservation implications for the Cow Head Tui Chub

Author:
Chen, Yongjiu; Reid, Stewart; May, Bernie
Source:
Conservation genetics 2009 v.10 no.1 pp. 101-114
ISSN:
1566-0621
Subject:
DNA; basins; fish; genetic relationships; genetic variation; habitats; hydrology; lakes; loci; microsatellite repeats; rivers; viability; watersheds; California; Nevada
Abstract:
... The Cow Head Tui Chub, Siphateles thalassinus vaccaceps, is restricted to the small Cow Head basin in far northeastern California and northwestern Nevada. Using microsatellite DNA loci, we found extensive genetic variation among tui chub populations in the Cow Head and surrounding basins of the northwestern Great Basin. Our data support the systematic conclusions of earlier authors, while showing ...
DOI:
10.1007/s10592-008-9529-x

75. Molecular data reveals California as the potential source of an invasive leafhopper species, Macrosteles sp. nr. severini, transmitting the aster yellows phytoplasma in Hawaii

Author:
Le Roux, J.J.; Rubinoff, D.
Source:
Annals of applied biology 2009 v.154 no.3 pp. 419-427
ISSN:
0003-4746
Subject:
Aster yellows phytoplasma; DNA; Macrosteles quadrilineatus; NAD (coenzyme); cytochrome-c oxidase; females; genes; genetic variation; haplotypes; industry; invasive species; models; nucleotide sequences; phylogeny; topology; watercress; California; Oahu
Abstract:
... A species of aster leafhopper (Macrosteles sp.) became established in 2001 on Oahu, Hawaii, and through the transmission of the aster yellows phytoplasma, caused devastating losses to the island's watercress industry. DNA sequence data were analysed from two mitochondrial genes [cytochrome oxidase subunit 1(CO1) and nicotinamide adenine dinucleotide 1 (NADH1)] and one nuclear gene (wingless, Wg) ( ...
DOI:
10.1111/j.1744-7348.2008.00315.x

76. Near real-time, autonomous detection of marine bacterioplankton on a coastal mooring in Monterey Bay, California, using rRNA-targeted DNA probes

Author:
Preston, Christina M.; Marin, Roman III.; Jensen, Scott D.; Feldman, Jason; Birch, James M.; Massion, Eugene I.; DeLong, Edward F.; Suzuki, Marcelino; Wheeler, Kevin; Scholin, Christopher A.
Source:
Environmental microbiology 2009 v.11 no.5 pp. 1168-1180
ISSN:
1462-2912
Subject:
Cyanobacteria; DNA; DNA probes; alpha-Proteobacteria; bacterioplankton; buffers; detection limit; equipment; homogenization; molecular cloning; ribosomal RNA; time series analysis; California
Abstract:
... A sandwich hybridization assay (SHA) was developed to detect 16S rRNAs indicative of phylogenetically distinct groups of marine bacterioplankton in a 96-well plate format as well as low-density arrays printed on a membrane support. The arrays were used in a field-deployable instrument, the Environmental Sample Processor (ESP). The SHA employs a chaotropic buffer for both cell homogenization and hy ...
DOI:
10.1111/j.1462-2920.2009.01848.x
PubMed:
19210704

77. Optimized DNA extraction methods for encysted embryos of the endangered fairy shrimp, Branchinecta sandiegonensis

Author:
Steele, Allison N.; Simovich, Marie A.; Pepino, Domenica; Schroeder, Kathleen McNamara; Vandergast, Amy G.; Bohonak, Andrew J.
Source:
Conservation genetics 2009 v.10 no.6 pp. 1777-1781
ISSN:
1566-0621
Subject:
Crustacea; DNA; DNA barcoding; adults; endangered species; genotyping; habitats; indigenous species; life history; reproduction; shrimp; taxonomic keys; vernal pools; California
Abstract:
... The San Diego fairy shrimp Branchinecta sandiegonensis is a federally endangered species endemic to vernal pools in southern California, USA. Filling events in these habitats are highly variable, with some pools failing to hold water long enough for reproduction over many successive years. Studies of this species are thus hindered by the relatively rare appearance of aquatically active life histor ...
DOI:
10.1007/s10592-008-9733-8

78. Vegetative Compatibility Groups in Fusarium oxysporum f.sp. ciceris and F. oxysporum Non-pathogenic to Chickpea

Author:
Nogales Moncada, Ana M.; Jiménez Díaz, Rafael M.; Pérez Artés, Encarnación
Source:
Phytopathologische Zeitschrift 2009 v.157 no.11-12 pp. 729-735
ISSN:
0931-1785
Subject:
DNA; Fusarium oxysporum f. sp. ciceri; avirulent strains; chickpeas; genome; heterokaryon; monophyly; races; random amplified polymorphic DNA technique; roots; virulence; Algeria; California; India; Italy; Morocco; Pakistan; Spain; Tunisia
Abstract:
... Forty-seven isolates of Fusarium oxysporum f.sp.ciceris, representative of the different pathogenic races and originating from California, India, Tunisia and Spain, and twenty-five non-pathogenic F. oxysporum isolates obtained from chickpea roots in Algeria, Italy, Morocco, Pakistan and Spain, were analyzed for vegetative compatibility. Only one vegetative compatibility group (VCG) was found among ...
DOI:
10.1111/j.1439-0434.2009.01562.x

79. A picky palate? The host plant selection of an endangered June beetle

Author:
Hill, Kirsten E.; O'Malley, Rachel
Source:
Journal of insect conservation 2010 v.14 no.3 pp. 277-287
ISSN:
1366-638X
Subject:
Angiospermae; DNA; Polyphylla; endangered species; ferns and fern allies; frass; host plants; insects; microhabitats; palate; vegetation; California
Abstract:
... Precise information about endangered species, in particular identifying their resources requirements, is needed to identify areas that might support populations. Little is known about the endangered Mount Hermon June Beetle (Polyphylla barbata) found only within Zayante soils region of Santa Cruz County, California. We investigated the beetle's host plant selection, habitat association and mating ...
DOI:
10.1007/s10841-009-9257-7

80. Adaptation of a Phytophthora ramorum Real-Time Polymerase Chain Reaction Assay Based on a Mitochondrial Gene Region for Use on the Cepheid SmartCycler

Author:
K. E. Sechler; M. M. Carras; N. Shishkoff; P. W. Tooley
Source:
Plant health progress 2010 v.11 no.1 pp. -
ISSN:
1535-1025
Subject:
DNA; Phytophthora kernoviae; Phytophthora ramorum; cross reaction; detection limit; freeze drying; mitochondria; mitochondrial genes; quantitative polymerase chain reaction; quarantine; reverse transcriptase polymerase chain reaction; California
Abstract:
... Detection of Phytophthora ramorum in US commercial nurseries has led to a number of quarantine regulations. Methods such as real-time PCR (RT-PCR) provide rapid and reliable detection that can supplement attempts to culture P. ramorum from symptomatic tissue. We adapted and optimized a previously described mitochondrial gene-based RT-PCR assay for use with a Cepheid SmartCycler v.1 and ready-to-us ...
DOI:
10.1094/PHP-2010-0212-01-RS

81. Coupled Arsenotrophy in a Hot Spring Photosynthetic Biofilm at Mono Lake, California

Author:
Hoeft, Shelley E.; Kulp, Thomas R.; Han, Sukkyun; Lanoil, Brian; Oremland, Ronald S.
Source:
Applied and environmental microbiology 2010 v.76 no.14 pp. 4633-4639
ISSN:
0099-2240
Subject:
DNA; Ectothiorhodospira; acetates; amino acids; anaerobic conditions; arsenates; arsenic; bacterial communities; bicarbonates; biofilm; genes; hydrogen sulfide; islands; lakes; molecular cloning; oxidation; photosynthesis; polymerase chain reaction; ribosomal RNA; rocks; springs (water); California
Abstract:
... Red-pigmented biofilms grow on rock and cobble surfaces present in anoxic hot springs located on Paoha Island in Mono Lake. The bacterial community was dominated (~ 85% of 16S rRNA gene clones) by sequences from the photosynthetic Ectothiorhodospira genus. Scraped biofilm materials incubated under anoxic conditions rapidly oxidized As(III) to As(V) in the light via anoxygenic photosynthesis but co ...
DOI:
10.1128/AEM.00545-10
PubMed:
20511421
PubMed Central:
PMC2901740

82. Identification of Novel Methane-, Ethane-, and Propane-Oxidizing Bacteria at Marine Hydrocarbon Seeps by Stable Isotope Probing

Author:
Redmond, Molly C.; Valentine, David L.; Sessions, Alex L.
Source:
Applied and environmental microbiology 2010 v.76 no.19 pp. 6412-6422
ISSN:
0099-2240
Subject:
DNA; Methylococcaceae; Methylophaga; Methylophilaceae; bacteria; carbon; coal; ethane; fatty acids; genes; methane; methanol; methanotrophs; nucleotide sequences; oils; oxidation; propane; restriction fragment length polymorphism; ribosomal RNA; sediments; sequence analysis; stable isotopes; California
Abstract:
... Marine hydrocarbon seeps supply oil and gas to microorganisms in sediments and overlying water. We used stable isotope probing (SIP) to identify aerobic bacteria oxidizing gaseous hydrocarbons in surface sediment from the Coal Oil Point seep field located offshore of Santa Barbara, California. After incubating sediment with ¹³C-labeled methane, ethane, or propane, we confirmed the incorporation of ...
DOI:
10.1128/AEM.00271-10
PubMed:
20675448
PubMed Central:
PMC2950463

83. Nuclear-Mitochondrial Barcoding Exposes the Global Pest Western Flower Thrips (Thysanoptera: Thripidae) as Two Sympatric Cryptic Species in Its Native California

Author:
Rugman-Jones, Paul F.; Hoddle, Mark S.; Stouthamer, Richard
Source:
Journal of economic entomology 2010 v.103 no.3 pp. 877-886
ISSN:
0022-0493
Subject:
mitochondrial DNA; phylogeny; Frankliniella occidentalis; genes; population dynamics; genetic markers; plant pests; insect genetics; insect ecology; sequence analysis; geographical distribution; insect pests; barcoding; cytochrome P-450; loci; geographical variation; population genetics; nucleotide sequences; genetic variation; pest monitoring; California
Abstract:
... Over the past three decades, Western flower thrips, Frankliniella occidentalis (Pergande) (Thysanoptera: Thripidae), has become a major worldwide pest of many agricultural and horticultural crops. In response, much time, money, and effort have been put into pure and applied research focusing on the biology and control of this pest, Western flower thrips is native to Western North America and wides ...
DOI:
10.1603/EC09300
PubMed:
20568635

84. Oral shedding of Bartonella in cats: Correlation with bacteremia and seropositivity

Author:
Namekata, David Y.; Kasten, Rickie W.; Boman, Dawn A.; Straub, Mary H.; Siperstein-Cook, Laurie; Couvelaire, Karen; Chomel, Bruno B.
Source:
Veterinary microbiology 2010 v.146 no.3-4 pp. 371-375
ISSN:
0378-1135
Subject:
cats; Bartonella henselae; Bartonella clarridgeiae; Bartonella koehlerae; disease reservoirs; disease transmission; saliva; bacterial infections; mouth; lesions (animal); antibodies; immunologic techniques; microbial genetics; DNA; Siphonaptera; insect vectors; insect pests; seroprevalence; polymerase chain reaction; Michigan; California
Abstract:
... Cats are the main reservoirs of zoonotic Bartonella henselae, B. clarridgeiae and B. koehlerae, transmitted among cats by cat fleas. No study has investigated the presence of Bartonella in the saliva of bacteremic and non-bacteremic cats to correlate it to the level of bacteremia and the presence or absence of oral lesions. Shelter cats from northern California (n =130) and Michigan (n =50) were t ...
DOI:
10.1016/j.vetmic.2010.05.034

85. Phylogeography of cutleria cylindrica (cutleriales, phaeophyceae) in northeastern asia, and the identity of an introduced population in california

Author:
Kogishi, Keita; Kitayama, Taiju; Miller, Kathy Ann; Hanyuda, Takeaki; Kawai, Hiroshi
Source:
Journal of phycology 2010 v.46 no.3 pp. 553-558
ISSN:
0022-3646
Subject:
life history; phylogeny; genes; phylogeography; Tilopteridales; gametophytes; haplotypes; open reading frames; DNA; males; genetic distance; sex ratio; females; genetic relationships; parthenogenesis; germ cells; genetic variation; Korean Peninsula; Mexico; California; Japan
Abstract:
... Cutleria cylindrica Okamura was described from Japan in 1902 and has been reported only from northwestern Asia until its relatively recent discovery in California, USA, and Baja California, Mexico. To clarify the genetic relationships within and among the disjunct populations, we carried out a molecular phylogenetic study, as well as the examination of sex ratio and the life-history patterns, of p ...
DOI:
10.1111/j.1529-8817.2010.00818.x

86. Salmon Poisoning Disease in Dogs: 29 Cases

Author:
Sykes, J.E.; Marks, S.L.; Mapes, S.; Schultz, R.M.; Pollard, R.E.; Tokarz, D.; Pesavento, P.P.; Lindsay, L.L; Foley, J.E.
Source:
Journal of veterinary internal medicine 2010 v.24 no.3 pp. 504-513
ISSN:
0891-6640
Subject:
DNA; Labrador Retriever; Neorickettsia helminthoeca; Trematoda; centrifugation; cephalosporins; chloramphenicol; dogs; epidemiology; feces; fever; fish; flukes; gastrointestinal system; histopathology; image analysis; lymph nodes; males; microscopy; mortality; ova; penicillins; poisoning; polymerase chain reaction; risk factors; seizures; tetracycline; ultrasonography; California
Abstract:
... Background: Salmon poisoning disease (SPD) is a trematode-borne disease of dogs caused by Neorickettsia helminthoeca. Objectives: To determine risk factors and spatial epidemiology of SPD in dogs from northern California; to describe the clinicopathologic, microbiologic, and imaging findings of SPD in these dogs; and to evaluate treatments and outcomes for SPD. Animals: Twenty-nine dogs with SPD b ...
DOI:
10.1111/j.1939-1676.2010.0493.x

87. Transfer of cholera toxin genes from O1 to non‐O1/O139 strains by vibriophages from California coastal waters

Author:
S. Choi; D. Dunams; S.C. Jiang
Source:
Journal of applied microbiology 2010 v.108 no.3 pp. 1015-1022
ISSN:
1364-5072
Subject:
DNA; Vibrio cholerae; aquatic ecosystems; bacteriophages; cholera; cholera toxin; coastal water; genes; pathogenicity; pathogens; winter; California
Abstract:
... Aims: Vibrio cholerae is an important bacterial pathogen that causes global cholera epidemic. Although they are commonly found in coastal waters around the world, most environmental isolates do not contain cholera toxin genes. This study investigates vibriophages in southern California coastal waters and their ability to transfer cholera toxin genes. Methods and Results: Lytic phages infecting V.  ...
DOI:
10.1111/j.1365-2672.2009.04502.x
PubMed:
19735324

88. A Multiplex Real-Time Polymerase Chain Reaction Assay to Diagnose Epiphyas postvittana (Lepidoptera: Tortricidae)

Author:
Barr, N.B.; Ledezma, L.A.; Farris, R.E.; Epstein, M.E.; Gilligan, T.M.
Source:
Journal of economic entomology 2011 v.104 no.5 pp. 1706-1719
ISSN:
0022-0493
Subject:
DNA; DNA barcoding; Epiphyas postvittana; cytochrome-c oxidase; data collection; genes; internal transcribed spacers; moths; quantitative polymerase chain reaction; reverse transcriptase polymerase chain reaction; ribosomal RNA; Australia; California; England; Hawaii; New Zealand
Abstract:
... A molecular assay for diagnosis of light brown apple moth, Epiphyas postvittana (Walker) (Lepidoptera: Tortricidae), in North America is reported. The assay multiplexes two TaqMan real-time polymerase chain reaction (RT-PCR) probe systems that are designed to target DNA segments of the internal transcribed spacer region 2 (ITS2) and 18S rRNA gene. The RT-PCR probe designed for the 18S target recog ...
DOI:
10.1603/EC11093
PubMed:
22066202

89. Amanita vernicoccora sp. nov.--the vernal fruiting 'coccora' from California

Author:
Bojantchev, Dimitar; Pennycook, Shaun R.; Davis, R. Michael
Source:
Mycotaxon 2011 v.117 pp. 485-497
ISSN:
0093-4666
Subject:
Amanita; DNA; fruiting; new species; phenotype; sequence analysis; California
Abstract:
... We describe Amanita vernicoccora, a vernal fruiting species known as the "spring coccora" in California. Sequence analyses of four DNA regions and phenotypic traits demonstrate that A. vernicoccora, long considered a pale-colored form of the autumnal fruiting A. calyptroderma (the 'fall coccora'), is a unique species. Morphological and genetic data support both species in section Caesareae. We als ...
DOI:
10.5248/117.485

90. Characterization of White Rust of Perennial Pepperweed Caused by Albugo candida in California

Author:
Koike S. T.; Sullivan M. J.; Southwick C.; Feng C.; Correll J. C.
Source:
Plant disease 2011 v.95 no.7 pp. 876
ISSN:
0191-2917
Subject:
Albugo candida; Armoracia rusticana; Brassica juncea; Brassica rapa subsp. chinensis; Capsella bursa-pastoris; Chinese cabbage; DNA; DNA primers; Eruca vesicaria subsp. sativa; Lepidium latifolium; Raphanus sativus; Rorippa; Sinapis alba; Sisymbrium officinale; arugula; broccoli; cauliflower; crops; farms; fungal diseases of plants; genetic databases; greenhouses; growers; host range; hosts; internal transcribed spacers; irrigation canals; leaves; marshes; meadows; noxious weeds; pathogenicity; plant pathogenic fungi; polymerase chain reaction; races; relative humidity; seedlings; sporangia; spraying; zoospores; Bulgaria; California; Colorado; Portugal; Spain
Abstract:
... In California, perennial pepperweed (Lepidium latifolium) is an introduced Brassicaceae plant that is invasive, highly competitive, and listed as a noxious weed that grows in areas such as marshes, meadows, roadsides, and irrigation ditches. From 2008 through 2010, perennial pepperweed growing near farms in Monterey and Santa Clara counties was infected with white rust. Symptoms were light green-t ...
DOI:
10.1094/PDIS-03-11-0153

91. Co-infection of Ornithodoros coriaceus with the relapsing fever spirochete, Borrelia coriaceae, and the agent of epizootic bovine abortion

Author:
TEGLAS, M.B.; MAPES, S.; HODZIC, E.; NIETO, N.C.
Source:
Medical and veterinary entomology 2011 v.25 no.3 pp. 337-343
ISSN:
0269-283X
Subject:
Borrelia coriaceae; DNA; Ornithodoros coriaceus; arid zones; bacterial infections; beef cattle; fever; habitats; pathogens; polymerase chain reaction; risk analysis; ticks; California; Nevada; Oregon
Abstract:
... The soft tick, Ornithodoros coriaceus (Koch) (Acari: Argasidae), is a common mammalian parasite of livestock in many arid regions of the western U.S.A. The tick is a known vector of the undescribed bacterial pathogen that causes epizootic bovine abortion (EBA), which results in late-term abortions in beef cattle and subsequent economic loss, which can be considerable, to producers. A second report ...
DOI:
10.1111/j.1365-2915.2011.00952.x
PubMed:
21410735

92. Evaluation of Loop-Mediated Isothermal Amplification for Rapid Detection of Erwinia amylovora on Pear and Apple Fruit Flowers

Author:
Temple, Todd N.; Johnson, Kenneth B.
Source:
Plant disease 2011 v.95 no.4 pp. 423-430
ISSN:
0191-2917
Subject:
risk; orchards; Erwinia amylovora; apples; flowering; DNA; heat; models; epiphytes; flowers; pathogens; pears; risk assessment; microbial detection; loop-mediated isothermal amplification; fire severity; Oregon; Utah; California
Abstract:
... Fire blight of pear and apple is frequently an inoculum-limited disease but weather-based forecasting models commonly assume that the pathogen is omnipresent. To improve fire blight risk assessment during flowering, we developed a rapid pathogen detection protocol that uses loop-mediated isothermal amplification (LAMP) to detect DNA of epiphytic Erwinia amylovora on samples of pear and apple flowe ...
DOI:
10.1094/PDIS-09-10-0636

93. First Report of Rust Caused by Puccinia psidii on Paperbark, Melaleuca quinquenervia, in California

Author:
Zambino P. J.; Nolan P. A.
Source:
Plant disease 2011 v.95 no.10 pp. 1314
ISSN:
0191-2917
Subject:
DNA; Eucalyptus; Melaleuca quinquenervia; Metrosideros excelsa; Myrtus communis; Pimenta dioica; Psidium; Puccinia psidii; Syzygium australe; Syzygium samarangense; USDA Forest Service; Uredo; allspice; apples; crops; digital images; forestry; genetic databases; image analysis; internal transcribed spacers; leaves; ornamental plants; pathogenicity; pathogens; pests; polymerase chain reaction; sequence analysis; tea; teliospores; trees; urediniospores; California; Florida; Hawaii
Abstract:
... Infections by Puccinia psidii Winter were detected on Melaleuca quinquenervia (Cav.) Blake (paperbark, tea tree) during a regular inspection of a San Diego, California nursery in November 2010 by San Diego County inspectors. Urediniospore morphology, production of bright-yellow uredinia on both upper and lower leaf surfaces, DNA sequencing, and inoculation tests confirm the identity of the pathoge ...
DOI:
10.1094/PDIS-03-11-0188

94. Genotypic diversity and spatial–temporal distribution of Symbiodinium clones in an abundant reef coral

Author:
DANIEL T. PETTAY; DREW C. WHAM; JORGE H. PINZÓN; TODD C. LAJEUNESSE
Source:
Molecular ecology 2011 v.20 no.24 pp. 5197-5212
ISSN:
0962-1083
Subject:
Symbiodinium; clones; coral reefs; environmental factors; founder effect; gene frequency; genetic variation; genotype; microsatellite repeats; space and time; symbionts; symbiosis; Gulf of California
Abstract:
... Genetic data are rapidly advancing our understanding of various biological systems including the ecology and evolution of coral–algal symbioses. The fine‐scale interactions between individual genotypes of host and symbiont remain largely unstudied and constitute a major gap in knowledge. By applying microsatellite markers developed for both host and symbiont, we investigated the intracolony divers ...
DOI:
10.1111/j.1365-294X.2011.05357.x
PubMed:
22082053
PubMed Central:
PMC5957298

95. Isolation and characterization of two serine proteases from metagenomic libraries of the Gobi and Death Valley deserts

Author:
Julie Neveu; Christophe Regeard; Michael S. DuBow
Source:
Applied microbiology and biotechnology 2011 v.91 no.3 pp. 635-644
ISSN:
0175-7598
Subject:
DNA; amino acid sequences; clones; deserts; genomic libraries; metagenomics; molecular weight; pH; sand; screening; sequence analysis; subtilisin; valleys
Abstract:
... The screening of environmental DNA metagenome libraries for functional activities can provide an important source of new molecules and enzymes. In this study, we identified 17 potential protease-producing clones from two metagenomic libraries derived from samples of surface sand from the Gobi and Death Valley deserts. Two of the proteases, DV1 and M30, were purified and biochemically examined. The ...
DOI:
10.1007/s00253-011-3256-9
PubMed:
21494865

96. Molecular Detection and Identification of Bartonella Species in Xenopsylla cheopis Fleas (Siphonaptera: Pulicidae) Collected from Rattus norvegicus Rats in Los Angeles, California

Author:
Sarah A. Billeter; Vijay A. K. B. Gundi; Michael P. Rood; Michael Y. Kosoy
Source:
Applied and environmental microbiology 2011 v.77 no.21 pp. 7850-7852
ISSN:
0099-2240
Subject:
Bartonella; DNA; Rattus norvegicus; Xenopsylla cheopis; rats; taxonomy; California
Abstract:
... Of 200 individual Xenopsylla cheopis fleas removed from Rattus norvegicus rats trapped in downtown Los Angeles, CA, 190 (95%) were positive for the presence of Bartonella DNA. Ninety-one amplicons were sequenced: Bartonella rochalimae-like DNA was detected in 66 examined fleas, and Bartonella tribocorum-like DNA was identified in 25 fleas. The data obtained from this study demonstrate an extremely ...
DOI:
10.1128/AEM.06012-11
PubMed:
21908631
PubMed Central:
PMC3209143

97. New, resurrected and redefined species of Mastocarpus (Phyllophoraceae, Rhodophyta) from the northeast Pacific

Author:
Sandra C. Lindstrom; Jeffery R. Hughey; Patrick T. Martone
Source:
Phycologia 2011 v.50 no.6 pp. 661-683
ISSN:
2330-2968
Subject:
DNA; Mastocarpus; algae; chloroplasts; cryptic species; cytochrome-c oxidase; genome; mitochondria; new species; phylogeny; California
Abstract:
... Lindstrom S.C., Hughey J.R. and Martone P.T. 2011. New, resurrected and redefined species of Mastocarpus (Phyllophoraceae, Rhodophyta). Phycologia 50: 661–683. DOI: 10.2216/10-38.1 Recent molecular phylogenetic investigations of the red algal genus Mastocarpus from the northeast Pacific resolved numerous cryptic species. Although species were clearly defined through genetic analyses, the correct n ...
DOI:
10.2216/10-38.1

98. North American continent - a new source of wild Lactuca spp. germplasm variability for future lettuce breeding

Author:
Lebeda, A.; Dolezalova, I.; Kitner, M.; Novotna, A.; Smachova, P.; Widrlechner, M.P.
Source:
Acta horticulturae 2011 v. no.918 pp. 475-482
ISSN:
0567-7572
Subject:
hybrids; amplified fragment length polymorphism; DNA; phenotypic variation; genetic polymorphism; germplasm; lettuce; breeding; Lactuca; Arizona; Iowa; Wisconsin; Utah; California; Nevada; South Dakota; Idaho; Wyoming; Minnesota; Ontario; Quebec; Oregon; New York; Montana; North Carolina; Colorado
Abstract:
... In the years 2002-2008, missions were undertaken in the USA and Canada to search for wild and weedy Lactuca species. Altogether, 16 states in the USA (Arizona, California, Colorado, Idaho, Iowa, Minnesota, Montana, Nevada, New York, North Carolina, Oregon, South Dakota, Utah, Washington, Wisconsin and Wyoming) and two provinces in Canada (Ontario and Quebec) were visited. In total, seven wild and ...

99. Notice of Release of Majestic Germplasm and Spectrum Germplasm western prairie clover: selected class of natural germplasm

Author:
Johnson, Douglas A.; Bushman, B. Shaun; Bhattarai, Kishor; Connors, Kevin J.
Source:
Native plants journal 2011 v.12 no.3 pp. 249-256
ISSN:
1522-8339
Subject:
germplasm; plateaus; ecoregions; rangelands; seed industry; DNA; mountains; Dalea ornata; land restoration; genetic variation; new species; forbs; Oregon; Idaho; Nevada; Snake River; California
Abstract:
... Two natural-track selected germplasms of western prairie clover (Dalea ornata (Douglas ex Hook.) Eaton & J. Wright [Fabaceae]) have been released for use in revegetation of semiarid rangelands in the western US. Western prairie clover is a perennial leguminous forb that occurs naturally in Idaho, Washington, Oregon, California, and Nevada. Majestic Germplasm western prairie clover originates from ...

100. Novel hemotrophic mycoplasma identified in naturally infected California sea lions (Zalophus californianus)

Author:
Dmitriy V. Volokhov; Tenaya Norris; Carlos Rios; Maureen K. Davidson; Joanne B. Messick; Frances M. Gulland; Vladimir E. Chizhikov
Source:
Veterinary microbiology 2011 v.149 no.1-2 pp. 262-268
ISSN:
0378-1135
Subject:
DNA; EDTA (chelating agent); Mirounga angustirostris; Mycoplasma; Zalophus; alpacas; bacteria; blood; blood flow; blood sampling; genes; hosts; marine mammals; nucleotide sequences; phylogeny; reverse transcriptase polymerase chain reaction; ribosomal RNA; California; Oregon
Abstract:
... The hemoplasmas are the trivial name for a group of erythrocyte-parasitizing, non-cultivable in vitro bacteria of the genus Mycoplasma that have been described in several mammalian hosts worldwide. This study is the first report of hemoplasmas in marine mammals. EDTA anticoagulated whole blood samples from 137 California sea lions (Zalophus californianus) and 20 northern elephant seals (Mirounga a ...
DOI:
10.1016/j.vetmic.2010.10.026
PubMed:
21111543