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You searched for: Author "Brandon Schlautman" Remove constraint Author: "Brandon Schlautman"
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1. Re-imagining crop domestication in the era of high throughput phenomics

Author:
Brandon Schlautman,   et al.   ; David L. Van Tassel; Lee R. DeHaan; Luis Diaz-Garcia; Jenna Hershberger; Matthew J. Rubin; Kathryn Turner; Allison J. Miller;     Show all 8 Authors
Source:
Current opinion in plant biology 2022 v.65 pp. 102150
ISSN:
1369-5266
Subject:
domestication; ecosystem services; genetic improvement; genome; genomics; marker-assisted selection; pedigree; phenomics; phenotype; plant biology; species diversity
Abstract:
... De novo domestication is an exciting option for increasing species diversity and ecosystem service functionality of agricultural landscapes. Genomic selection (GS), the application of genomic markers to predict phenotypic traits in a breeding population, offers the possibility of rapid genetic improvement, making GS especially attractive for modifying traits of long-lived species. However, for som ...
DOI:
10.1016/j.pbi.2021.102150

2. Intermediate wheatgrass seed size and moisture dynamics inform grain harvest timing

Author:
Brandon Schlautman,   et al.   ; Garett C. Heineck; Eugene P. Law; Matthew R. Ryan; Joseph W. Zimbric; Valentin Picasso; David E. Stoltenberg; Craig C. Sheaffer; Jacob M. Jungers;     Show all 9 Authors
Source:
Crop science 2022 v.62 no.1 pp. 410-424
ISSN:
0011-183X
Subject:
Thinopyrum intermedium subsp. intermedium; cold season; field experimentation; florets; flowering; harvest date; seed development; seed moisture; seed size; seed yield; water content
Abstract:
... Intermediate wheatgrass (IWG) [Thinopyrum intermedium (Host) Barkworth & D. R. Dewey subsp. intermedium] is being domesticated as a perennial grain crop. Advanced grain‐type IWG populations display variability in key physiological parameters related to seed development, making it difficult to determine grain harvest timing. A quantitative literature review of cool‐season grasses informed the model ...
DOI:
10.1002/csc2.20662

3. Morphometric approaches to promote the use of exotic germplasm for improved food security and resilience to climate change: a kura clover example

Author:
Brandon Schlautman,   et al.   ; Luis Diaz-Garcia; Spencer Barriball;     Show all 3 Authors
Source:
Plant science 2020 v.290 pp. 110319
ISSN:
0168-9452
Subject:
Trifolium ambiguum; USDA; agriculture; breeding; cataloging; climate; climate change; cropping systems; food security; gene banks; germplasm; information; leaf morphology; leaves; materials; monitoring; morphometry; new crops; pH; phenotype
Abstract:
... Adaptation of agriculture to climate change and its associated ecological pressures will require new crops, novel trait combinations, and previously unknown phenotypic attributes to deploy in climate resilient cropping systems. Genebanks, a primary source of exotic germplasm for novel crops and breeding materials, need comprehensive methods to detect novel and unknown phenotypes without a priori i ...
DOI:
10.1016/j.plantsci.2019.110319

4. Reprint of: Morphometric approaches to promote the use of exotic germplasm for improved food security and resilience to climate change: A kura clover example

Author:
Brandon Schlautman,   et al.   ; Luis Diaz-Garcia; Spencer Barriball;     Show all 3 Authors
Source:
Plant science 2020 v.295 pp. 110415
ISSN:
0168-9452
Subject:
Trifolium ambiguum; USDA; agriculture; breeding; cataloging; climate; climate change; cropping systems; food security; gene banks; germplasm; information; leaf morphology; leaves; materials; monitoring; morphometry; new crops; pH; phenotype
Abstract:
... Adaptation of agriculture to climate change and its associated ecological pressures will require new crops, novel trait combinations, and previously unknown phenotypic attributes to deploy in climate resilient cropping systems. Genebanks, a primary source of exotic germplasm for novel crops and breeding materials, need comprehensive methods to detect novel and unknown phenotypes without a priori i ...
DOI:
10.1016/j.plantsci.2020.110415

5. Process-based analysis of Thinopyrum intermedium phenological development highlights the importance of dual induction for reproductive growth and agronomic performance

Author:
Brandon Schlautman,   et al.   ; Olivier Duchene; Benjamin Dumont; Douglas J. Cattani; Laura Fagnant; Lee R. DeHaan; Spencer Barriball; Jacob M. Jungers; Valentin D. Picasso; Christophe David; Florian Celette;     Show all 11 Authors
Source:
Agricultural and forest meteorology 2021 v.301-302 pp. 108341
ISSN:
0168-1923
Subject:
Thinopyrum intermedium subsp. intermedium; agroecosystems; agronomic traits; early development; forests; grain yield; ideotypes; meteorology; models; phenology; photoperiod; plasticity; temperature; vernalization; weeds
Abstract:
... Intermediate wheatgrass (Thinopyrum intermedium (Host) Barkworth & D.R. Dewey) is being developed for use as a new perennial grain crop through breeding and agronomic research. However, progress has been hampered by lack of understanding of environmental requirements for flowering and grain production. Therefore, we developed a phenology model for IWG adapted from the STICS soil-crop model. The mo ...
DOI:
10.1016/j.agrformet.2021.108341

6. Envisioning perennial agroecosystems in Palestine

Author:
Brandon Schlautman,   et al.   ; Omar Tesdell; Yusra Othman; Yara Dowani; Samir Khraishi; Mary Deeik; Fouad Muaddi; Aubrey Streit Krug; David Van Tassel;     Show all 9 Authors
Source:
Journal of arid environments 2020 v.175 pp. 104085
ISSN:
0140-1963
Subject:
agrobiodiversity; agroecosystems; climate; climate change; economic outlook and situation; landscapes; perennials; politics; soil; Mediterranean region; Palestine
Abstract:
... Climatic change will seriously impact Mediterranean areas. Palestine, which has given forth annual grain based agriculture, is particularly vulnerable given its political and economic situation. Research is needed to build climate adaptation and resilience into agroecosystems within the same landscape that gave forth agriculture. A primary step in achieving that adaptation is to develop polycultur ...
DOI:
10.1016/j.jaridenv.2019.104085

7. Perennial Grain Legume Domestication Phase I: Criteria for Candidate Species Selection

Author:
Brandon Schlautman,   et al.   ; Spencer Barriball; Claudia Ciotir; Sterling Herron; Allison J. Miller;     Show all 5 Authors
Source:
Sustainability 2018 v.10 no.3 pp. -
ISSN:
2071-1050
Subject:
agroecosystems; anthropogenic activities; crops; domestication; ecophysiology; ecosystem services; fertilizers; genome; legumes; nitrogen; nutrients; plant breeding; plant genetic resources; runoff; seeds; soil erosion
Abstract:
... Annual cereal and legume grain production is dependent on inorganic nitrogen (N) and other fertilizers inputs to resupply nutrients lost as harvested grain, via soil erosion/runoff, and by other natural or anthropogenic causes. Temperate-adapted perennial grain legumes, though currently non-existent, might be uniquely situated as crop plants able to provide relief from reliance on synthetic nitrog ...
DOI:
10.3390/su10030730

8. Cranberry SSR multiplexing panels for DNA horticultural fingerprinting and genetic studies

Author:
Brandon Schlautman,   et al.   ; Jenny Bolivar-Medina; Sarah Hodapp; Juan Zalapa;     Show all 4 Authors
Source:
Scientia horticulturae 2017 v.219 pp. 280-286
ISSN:
0304-4238
Subject:
DNA; DNA fingerprinting; Vaccinium macrocarpon; alleles; breeding programs; cranberries; cultivars; diploidy; farmers; fruits; genetic similarity; genetic variation; genotype; genotyping; germplasm; horticulture; industry; intellectual property rights; linkage groups; microsatellite repeats; plant breeders; principal component analysis; seedlings; seeds; self-pollination
Abstract:
... Cranberry (Vaccinium macrocarpon) is in need of inexpensive high-throughput DNA fingerprinting methods for genetic research and germplasm purity testing for agricultural purposes. Therefore, we designed and validated 16-multiplexing panels containing 61 evenly distributed simple sequence (SSR) markers, with non-overlapping allele ranges, throughout the 12 cranberry linkage groups. Several importan ...
Handle:
10113/5645825
DOI:
10.1016/j.scienta.2017.03.005
CHORUS:
10.1016/j.scienta.2017.03.005
Chorus Open Access:
10.1016/j.scienta.2017.03.005

9. SOFIA: An R Package for Enhancing Genetic Visualization With Circos

Author:
Brandon Schlautman,   et al.   ; Luis Diaz-Garcia; Giovanny Covarrubias-Pazaran; Juan Zalapa;     Show all 4 Authors
Source:
Journal of heredity 2017 v.108 no.4 pp. 443-448
ISSN:
0022-1503
Subject:
accuracy; automation; computer software; data analysis; genomics; publications; reproducibility
Abstract:
... Visualization of data from any stage of genetic and genomic research is one of the most useful approaches for detecting potential errors, ensuring accuracy and reproducibility, and presentation of the resulting data. Currently software such as Circos, ClicO FS, and RCircos, among others, provide tools for plotting a variety of genetic data types in a concise manner for data exploration and present ...
Handle:
10113/5695460
DOI:
10.1093/jhered/esx023

10. GiNA, an Efficient and High-Throughput Software for Horticultural Phenotyping

Author:
Brandon Schlautman,   et al.   ; Luis Diaz-Garcia; Giovanny Covarrubias-Pazaran; Juan Zalapa; ;     Show all 5 Authors
Source:
Plos One 2016 v.11 no.8 pp. e0160439
ISSN:
1932-6203
Subject:
anthocyanins; cameras; color; computer software; cranberries; crops; fruits; horticulture; phenotype; prediction; seeds; surface area; vegetables
Abstract:
... Traditional methods for trait phenotyping have been a bottleneck for research in many crop species due to their intensive labor, high cost, complex implementation, lack of reproducibility and propensity to subjective bias. Recently, multiple high-throughput phenotyping platforms have been developed, but most of them are expensive, species-dependent, complex to use, and available only for major cro ...
Handle:
10113/5678144
DOI:
10.1371/journal.pone.0160439
PubMed:
27529547
PubMed Central:
PMC4986961

11. Discriminating power of microsatellites in cranberry organelles for taxonomic studies in Vaccinium and Ericaceae

Author:
Brandon Schlautman,   et al.   ; Giovanny Covarrubias-Pazaran; Diego Fajardo; Shawn Steffan; Juan Zalapa;     Show all 5 Authors
Source:
Genetic resources and crop evolution 2017 v.64 no.3 pp. 451-466
ISSN:
0925-9864
Subject:
Vaccinium; chloroplast DNA; chloroplasts; cost effectiveness; cranberries; crops; genotype; interspecific hybridization; introgression; loci; microsatellite repeats; mitochondria; mitochondrial DNA; phylogeny
Abstract:
... Simple sequence repeats (SSRs) in chloroplast and mitochondrial DNA, which have not been previously developed in the Ericaceae or, more specifically, in the genus Vaccinium, can be powerful tools for determining evolutionary relationships among taxa. In this study, 30 chloroplast, 23 mitochondrial, and 1 mitochondrion-like SSRs were identified in cranberry (V. macrocarpon), and primer-pairs were d ...
DOI:
10.1007/s10722-016-0371-6

12. Massive phenotyping of multiple cranberry populations reveals novel QTLs for fruit anthocyanin content and other important chemical traits

Author:
Brandon Schlautman,   et al.   ; Luis Diaz-Garcia; Giovanny Covarrubias-Pazaran; Andrew Maule; Jennifer Johnson-Cicalese; Edward Grygleski; Nicholi Vorsa; Juan Zalapa;     Show all 8 Authors
Source:
Molecular genetics and genomics 2018 v.293 no.6 pp. 1379-1392
ISSN:
1617-4615
Subject:
Vaccinium macrocarpon; acids; anthocyanins; breeding; brix; color; commercialization; cranberries; fruiting; image analysis; industry; phenotype; prediction; proanthocyanidins; quantitative trait loci; ripening; sugars; titratable acidity
Abstract:
... Because of its known phytochemical activity and benefits for human health, American cranberry (Vaccinium macrocarpon L.) production and commercialization around the world has gained importance in recent years. Flavonoid compounds as well as the balance of sugars and acids are key quality characteristics of fresh and processed cranberry products. In this study, we identified novel QTL that influenc ...
DOI:
10.1007/s00438-018-1464-z
PubMed:
29967963
PubMed Central:
PMC6358209
CHORUS:
10.1007/s00438-018-1464-z

13. Construction of a High-Density American Cranberry (Ait.) Composite Map Using Genotyping-by-Sequencing for Multi-pedigree Linkage M Ait.) Composite Map Using Genotyping-by-Sequencing for Multi-pedigree Linkage Mapping

Author:
Brandon Schlautman,   et al.   ; Giovanny Covarrubias-Pazaran; Luis Diaz-Garcia; Massimo Iorizzo; James Polashock; Edward Grygleski; Nicholi Vorsa; Juan Zalapa;     Show all 8 Authors
Source:
G3 2017 v.7 no.4 pp. 1177-1189
ISSN:
2160-1836
Subject:
Vaccinium macrocarpon; centromeres; cranberries; data collection; fruits; genetic background; genetic improvement; genomics; genotyping by sequencing; industry; segregation distortion
Abstract:
... The American cranberry (Vaccinium macrocarpon Ait.) is a recently domesticated, but economically important, fruit crop with limited molecular resources. New genetic resources could accelerate genetic gain in cranberry through characterization of its genomic structure and by enabling molecular-assisted breeding strategies. To increase the availability of cranberry genomic resources, the genotyping- ...
Handle:
10113/6472179
DOI:
10.1534/g3.116.037556
PubMed:
28250016
PubMed Central:
PMC5386866

14. The use of sequence-based SSR mining for the development of a vast collection of microsatellites in Aquilegia formosa

Author:
Brandon Schlautman,   et al.   ; Vera Pfeiffer; Juan Zalapa; Johanne Brunet;     Show all 4 Authors
Source:
American Journal of Plant Sciences 2014 v.5 no.15 pp. 2402-2412
ISSN:
2158-2742
Subject:
Aquilegia; DNA; DNA primers; alleles; databases; expressed sequence tags; forests; gene flow; genetic markers; genetic polymorphism; heterozygosity; loci; microsatellite repeats; Oregon
Abstract:
... Numerous microsatellite markers were developed for Aquilegia formosa from sequences deposited within the Expressed Sequence Tag (EST), Genomic Survey Sequence (GSS), and Nucleotide databases in NCBI. Microsatellites (SSRs) were identified and primers designed for 9 SSR containing sequences in the Nucleotide Database, 3,803 sequences in the EST database and 2,226 sequences in the GSS database. For ...
Handle:
10113/59548
DOI:
10.4236/ajps.2014.515253

15. Fragman: an R package for fragment analysis

Author:
Brandon Schlautman,   et al.   ; Giovanny Covarrubias-Pazaran; Luis Diaz-Garcia; Walter Salazar; Juan Zalapa;     Show all 5 Authors
Source:
BMC genetics 2016 v.17 no.1 pp. 62
ISSN:
1471-2156
Subject:
DNA fragmentation; alleles; animals; automation; chromosome mapping; computer software; genetic markers; genetic variation; heterozygosity; microsatellite repeats; mutation; pedigree; quantitative trait loci
Abstract:
... BACKGROUND: Determination of microsatellite lengths or other DNA fragment types is an important initial component of many genetic studies such as mutation detection, linkage and quantitative trait loci (QTL) mapping, genetic diversity, pedigree analysis, and detection of heterozygosity. A handful of commercial and freely available software programs exist for fragment analysis; however, most of the ...
Handle:
10113/62385
DOI:
10.1186/s12863-016-0365-6
PubMed:
27098093
PubMed Central:
PMC4839125

16. Intra- and interspecific hybridization in invasive Siberian elm

Author:
Brandon Schlautman,   et al.   ; Heidi Hirsch; Johanne Brunet; Juan E. Zalapa; Henrik von Wehrden; Matthias Hartmann; Carolin Kleindienst; Evsey Kosman; Karsten Wesche; Daniel Renison; Isabell Hensen;     Show all 11 Authors
Source:
Biological invasions 2017 v.19 no.6 pp. 1889-1904
ISSN:
1387-3547
Subject:
invasive species; alleles; evolution; interspecific hybridization; Ulmus minor; Ulmus pumila; Ulmus rubra; indigenous species; genetic variation; chloroplasts; Argentina; Western United States; Italy; Midwestern United States; Spain
Abstract:
... Hybridization creates unique allele combinations which can facilitate the evolution of invasiveness. Frequent interspecific hybridization between the Siberian elm, Ulmus pumila, and native elm species has been detected in the Midwestern United States, Italy and Spain. However, Ulmus pumila also occurs in the western United States and Argentina, regions where no native elm species capable of hybrid ...
Handle:
10113/5700674
DOI:
10.1007/s10530-017-1404-6

17. The American cranberry mitochondrial genome reveals the presence of selenocysteine (tRNA-Sec and SECIS) insertion machinery in land plants

Author:
Brandon Schlautman,   et al.   ; Diego Fajardo; Shawn Steffan; James Polashock; Nicholi Vorsa; Juan Zalapa;     Show all 6 Authors
Source:
Gene 2014 v.536 pp. 336-343
ISSN:
0378-1119
Subject:
Vaccinium macrocarpon; cytoplasmic inheritance; evolution; genes; mitochondria; mitochondrial DNA; nucleotide sequences; plastid DNA; ribosomal RNA; selenocysteine; sequence analysis; transfer RNA
Abstract:
... This is the first de novo assembly and annotation of a complete mitochondrial genome in the Ericales order from the American cranberry (Vaccinium macrocarpon Ait.). Moreover, only four complete Asterid mitochondrial genomes have been made publicly available. The cranberry mitochondrial genome was assembled and reconstructed from whole genome 454 Roche GS-FLX and Illumina shotgun sequences. Compare ...
Handle:
10113/58836
DOI:
10.1016/j.gene.2013.11.104
PubMed:
24342657

18. Development and Validation of 697 Novel Polymorphic Genomic and EST-SSR Markers in the American Cranberry (Vaccinium macrocarpon Ait.)

Author:
Brandon Schlautman,   et al.   ; Diego Fajardo; Tierney Bougie; Eric Wiesman; James Polashock; Nicholi Vorsa; Shawn Steffan; Juan Zalapa;     Show all 8 Authors
Source:
Molecules 2015 v.20 no.2 pp. 2001-2013
ISSN:
1420-3049
Subject:
DNA primers; Vaccinium macrocarpon; alleles; cranberries; diploidy; genetic markers; genetic variation; genotype; loci; microsatellite repeats; segregation distortion; transcriptomics
Abstract:
... The American cranberry, Vaccinium macrocarpon Ait., is an economically important North American fruit crop that is consumed because of its unique flavor and potential health benefits. However, a lack of abundant, genome-wide molecular markers has limited the adoption of modern molecular assisted selection approaches in cranberry breeding programs. To increase the number of available markers in the ...
Handle:
10113/60977
DOI:
10.3390/molecules20022001
PubMed:
25633331
PubMed Central:
PMC6272188

19. Comparative genetic mapping reveals synteny and collinearity between the American cranberry and diploid blueberry genomes

Author:
Brandon Schlautman,   et al.   ; Luis Diaz-Garcia; Giovanny Covarrubias-Pazaran; Nathan Schlautman; Nicholi Vorsa; James Polashock; Elizabeth L. Ogden; Allan Brown; Ying-Chen Lin; Nahla Bassil; Emily J. Buck; Claudia Wiedow; Susan McCallum; Julie Graham; Massimo Iorizzo; Lisa J. Rowland; Juan Zalapa;     Show all 17 Authors
Source:
Molecular breeding 2018 v.38 no.1 pp. 9
ISSN:
1380-3743
Subject:
Vaccinium corymbosum; Vaccinium darrowii; Vaccinium macrocarpon; adaptive radiation; blueberries; breeding; chromosome mapping; cranberries; data collection; diploidy; fruit crops; genes; genetic markers; genomics; linkage groups; microsatellite repeats; quantitative trait loci
Abstract:
... Cranberry and blueberry are closely related and recently domesticated fruit crops in the genus Vaccinium. Both have a presumed American origin and likely evolved from a common ancestor; however, details of their adaptive radiation and the extent of their genomic divergence remains little understood. To better understand their evolutionary and genomic relationships, a set of 323 cross-transferable ...
DOI:
10.1007/s11032-017-0765-y

20. Exploiting genotyping by sequencing to characterize the genomic structure of the American cranberry through high-density linkage mapping

Author:
Brandon Schlautman,   et al.   ; Giovanny Covarrubias-Pazaran; Luis Diaz-Garcia; Joseph Deutsch; Walter Salazar; Miguel Hernandez-Ochoa; Edward Grygleski; Shawn Steffan; Massimo Iorizzo; James Polashock; Nicholi Vorsa; Juan Zalapa;     Show all 12 Authors
Source:
BMC genomics 2016 v.17 no.1 pp. 1-16
ISSN:
1471-2164
Subject:
Coffea; Vaccinium macrocarpon; breeding; chromosome mapping; chromosomes; cranberries; genetic markers; genetic recombination; genome; genome-wide association study; genomics; genotyping; grapes; kiwifruit; linkage disequilibrium; linkage groups; microsatellite repeats; quantitative trait loci; segregation distortion; sequence analysis; single nucleotide polymorphism; specialty crops
Abstract:
... The application of genotyping by sequencing (GBS) approaches, combined with data imputation methodologies, is narrowing the genetic knowledge gap between major and understudied, minor crops. GBS is an excellent tool to characterize the genomic structure of recently domesticated (~200 years) and understudied species, such as cranberry (Vaccinium macrocarpon Ait.), by generating large numbers of mar ...
Handle:
10113/62658
DOI:
10.1186/s12864-016-2802-3
PubMed:
27295982
PubMed Central:
PMC4906896