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- Author:
- Clemmons, Brooke A.; Voy, Brynn H.; Myer, Phillip R.
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 523-536
- ISSN:
- 0095-3628
- Subject:
- beef cattle; beef industry; biomarkers; diet; energy; feed conversion; feeds; host specificity; host-pathogen relationships; intestinal microorganisms; methane production; microbiome; nitrogen; phenotype; red meat; rumen; selection criteria
- Abstract:
- ... The beef cattle industry represents a significant portion of the USA’s agricultural sect, with beef cattle accounting for the most red meat consumed in the USA. Feed represents the largest input cost in the beef industry, accounting for approximately 70% of total input cost. Given that, novel methods need to be employed to optimize feed efficiency in cattle to reduce monetary cost as well as envir ...
- DOI:
- 10.1007/s00248-018-1234-9
-
https://dx.doi.org/10.1007/s00248-018-1234-9
- Author:
- Ferrándiz, María J.; Cercenado, María I.; Domenech, Miriam; Tirado-Vélez, José M.; Escolano-Martínez, María S.; Yuste, Jose; García, Ernesto; de la Campa, Adela G.; Martín-Galiano, Antonio J.
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 471-487
- ISSN:
- 0095-3628
- Subject:
- Enterococcus; Gram-positive bacteria; Staphylococcus; Streptococcus pneumoniae; cadmium; cattle; essential amino acids; genes; metabolism; mice; mutants; nasopharynx; oligopeptides; phenotype; proteins; sugars; temperature; transcription (genetics); virulence
- Abstract:
- ... Proteins belonging to the Gls24 superfamily are involved in survival of pathogenic Gram-positive cocci under oligotrophic conditions and other types of stress, by a still unknown molecular mechanism. In Firmicutes, this superfamily includes three different valine-rich orthologal families (Gls24A, B, C) with different potential interactive partners. Whereas the Streptococcus pneumoniae Δgls24A dele ...
- DOI:
- 10.1007/s00248-018-1218-9
-
https://dx.doi.org/10.1007/s00248-018-1218-9
- Author:
- Murphy, Anna E.; Kolkmeyer, Rebecca; Song, Bongkuen; Anderson, Iris C.; Bowen, Jennifer
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 343-357
- ISSN:
- 0095-3628
- Subject:
- Alteromonadales; Crassostrea virginica; Mercenaria mercenaria; Rhodobacterales; Thiotrichales; ammonium; benthic zone; biochemical pathways; biogeochemical cycles; clams; coastal ecosystems; denitrification; dissolved inorganic carbon; ecological function; environmental factors; eutrophication; feeding behavior; high-throughput nucleotide sequencing; microbial communities; microbiome; mussels; organic matter; oysters; physiology; sediments; water quality
- Abstract:
- ... Bivalves serve an important ecosystem function in delivering organic matter from pelagic to benthic zones and are important in mediating eutrophication. However, the fate of this organic matter (i.e., biodeposits) is an important consideration when assessing the ecological roles of these organisms in coastal ecosystems. In addition to environmental conditions, the processing of biodeposits is depe ...
- DOI:
- 10.1007/s00248-018-01312-4
-
https://dx.doi.org/10.1007/s00248-018-01312-4
- Author:
- King, William L.; Jenkins, Cheryl; Go, Jeffrey; Siboni, Nachshon; Seymour, Justin R.; Labbate, Maurizio
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 502-512
- ISSN:
- 0095-3628
- Subject:
- Crassostrea gigas; Ostreid herpesvirus 1; Vibrio harveyi; bacteria; disease outbreaks; estuaries; microbiome; mortality; muscles; oysters; pathogens; ribosomal RNA; summer; viruses; Australia
- Abstract:
- ... The Pacific oyster, Crassostrea gigas, is a key commercial species that is cultivated globally. In recent years, disease outbreaks have heavily impacted C. gigas stocks worldwide, with many losses incurred during summer. A number of infectious agents have been associated with these summer mortality events, including viruses (particularly Ostreid herpesvirus 1, OsHV-1) and bacteria; however, cases ...
- DOI:
- 10.1007/s00248-018-1226-9
-
https://dx.doi.org/10.1007/s00248-018-1226-9
- Author:
- Ishizawa, Hidehiro; Kuroda, Masashi; Inoue, Kanako; Inoue, Daisuke; Morikawa, Masaaki; Ike, Michihiko
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 440-450
- ISSN:
- 0095-3628
- Subject:
- Acinetobacter; Asticcacaulis excentricus; Lemna minor; aquatic environment; aquatic plants; bacterial colonization; biogeochemical cycles; colonizing ability; ecological balance; host plants; plant growth; plant growth-promoting rhizobacteria
- Abstract:
- ... Despite the considerable role of aquatic plant-associated bacteria in host plant growth and nutrient cycling in aquatic environments, the mode of their plant colonization has hardly been understood. This study examined the colonization and competition dynamics of a plant growth-promoting bacterium (PGPB) and two plant growth-inhibiting bacteria (PGIB) in the aquatic plant Lemna minor (common duckw ...
- DOI:
- 10.1007/s00248-018-1306-x
-
https://dx.doi.org/10.1007/s00248-018-1306-x
- Author:
- Sakoda, Shoyo; Aisu, Kana; Imagami, Hiroki; Matsuda, Yosuke
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 370-379
- ISSN:
- 0095-3628
- Subject:
- Cenococcum geophilum; Pinus thunbergii; Streptomyces; bacteria; bacterial communities; community structure; ectomycorrhizae; forest ecosystems; genome; isolation techniques; mycorrhizal fungi; ribosomal DNA; root tips; sequence analysis; trees
- Abstract:
- ... Various bacteria are associated with ectomycorrhizal roots, which are symbiotic complexes formed between plant roots and fungi. Among these associated bacteria, actinomycetes have received attention for their ubiquity and diverse roles in forest ecosystems. Here, to examine the association of actinomycetes with ectomycorrhizal root tips, we compared the bacterial and actinomycete communities on th ...
- DOI:
- 10.1007/s00248-018-1221-1
-
https://dx.doi.org/10.1007/s00248-018-1221-1
- Author:
- Mikhailov, Ivan S.; Zakharova, Yulia R.; Bukin, Yuri S.; Galachyants, Yuri P.; Petrova, Darya P.; Sakirko, Maria V.; Likhoshway, Yelena V.
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 558
- ISSN:
- 0095-3628
- Subject:
- algal blooms; bacteria; eukaryotic cells; Lake Baikal
- Abstract:
- ... The original version of this article unfortunately contained mistakes in the legends of figures. ...
- DOI:
- 10.1007/s00248-018-1307-9
-
https://dx.doi.org/10.1007/s00248-018-1307-9
- Author:
- Weinisch, Lea; Kirchner, Isabell; Grimm, Maria; Kühner, Steffen; Pierik, Antonio J.; Rosselló-Móra, Ramon; Filker, Sabine
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 332
- ISSN:
- 0095-3628
- Subject:
- Ciliophora; betaine; solutes
- Abstract:
- ... The original version of this article unfortunately contained mistakes in the author affiliation, the references given in two tables and in a figure legend. ...
- DOI:
- 10.1007/s00248-018-1241-x
-
https://dx.doi.org/10.1007/s00248-018-1241-x
- Author:
- Zhang, Haihan; Feng, Ji; Chen, Shengnan; Zhao, Zhenfang; Li, Baoqin; Wang, Yue; Jia, Jingyu; Li, Sulin; Wang, Yan; Yan, Miaomiao; Lu, Kuanyu; Hao, Huiyan
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 304-316
- ISSN:
- 0095-3628
- Subject:
- DNA; Pseudomonas; Thauera; activated sludge; bacterial communities; carbon; community structure; denitrification; denitrifying bacteria; ecosystems; genes; high-throughput nucleotide sequencing; latitude; multivariate analysis; nitrogen; quantitative polymerase chain reaction; total nitrogen; wastewater; wastewater treatment
- Abstract:
- ... Denitrifying bacteria is a driver of nitrogen removal process in wastewater treatment ecosystem. However, the geographical characteristics of denitrifying bacterial communities associated with activated sludge from diverse wastewater treatment plants (WWTPs) are still unclear. Here, quantitative PCR and next-generation sequencing of the nirS gene were applied to characterize the abundance and deni ...
- DOI:
- 10.1007/s00248-018-1236-7
-
https://dx.doi.org/10.1007/s00248-018-1236-7
- Author:
- Weinisch, Lea; Kirchner, Isabell; Grimm, Maria; Kühner, Steffen; Pierik, Antonio J.; Rosselló-Móra, Ramon; Filker, Sabine
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 317-331
- ISSN:
- 0095-3628
- Subject:
- Ciliophora; betaine; electron microscopy; environmental factors; eukaryotic cells; genes; glaucoma; habitats; heterotrophs; nuclear magnetic resonance spectroscopy; osmotolerance; prokaryotic cells; ribosomal RNA; salinity; solutes
- Abstract:
- ... One decisive factor controlling the distribution of organisms in their natural habitats is the cellular response to environmental factors. Compared to prokaryotes, our knowledge about salt adaptation strategies of microbial eukaryotes is very limited. We, here, used a recently introduced approach (implementing proton nuclear magnetic resonance spectroscopy) to investigate the presence of compatibl ...
- DOI:
- 10.1007/s00248-018-1230-0
-
https://dx.doi.org/10.1007/s00248-018-1230-0
- Author:
- Xia, Xiaomin; Cheung, Shunyuan; Endo, Hisashi; Suzuki, Koji; Liu, Hongbin
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 333-342
- ISSN:
- 0095-3628
- Subject:
- Synechococcus; basins; chlorophyll; ecological differentiation; niches; oceans; species richness; summer; surface water; water temperature; Arctic region
- Abstract:
- ... Synechococcus is one of the most widely distributed and abundant picocyanobacteria in the global oceans. Although latitudinal variation of Synechococcus assemblage in marine surface waters has been observed, few studies compared Synechococcus assemblage composition in surface and subsurface waters at the basin scale. Here, we report marine Synechococcus diversity in the surface and deep chlorophyl ...
- DOI:
- 10.1007/s00248-018-1308-8
-
https://dx.doi.org/10.1007/s00248-018-1308-8
- Author:
- Pierangelini, Mattia; Glaser, Karin; Mikhailyuk, Tatiana; Karsten, Ulf; Holzinger, Andreas
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 380-393
- ISSN:
- 0095-3628
- Subject:
- Klebsormidium; acclimation; algae; amino acids; ancestry; drought tolerance; embryophytes; habitats; lifestyle; photons; photosynthesis; radiation resistance; spectral analysis; temperature; ultraviolet radiation
- Abstract:
- ... Streptophyte algae are the ancestors of land plants, and several classes contain taxa that are adapted to an aero-terrestrial lifestyle. In this study, four basal terrestrial streptophytes from the class Klebsormidiophyceae, including Hormidiella parvula; two species of the newly described genus Streptosarcina (S. costaricana and S. arenaria); and the newly described Streptofilum capillatum were i ...
- DOI:
- 10.1007/s00248-018-1225-x
- PubMed:
- 29974184
- PubMed Central:
- PMC6394494
-
https://dx.doi.org/10.1007/s00248-018-1225-x
- Author:
- Ding, Wei; Zhang, Weipeng; Alikunhi, Nabeel Mannalamkunnath; Batang, Zenon; Pei, Bite; Wang, Ruojun; Chen, Lianguo; Al-Suwailem, Abdulaziz; Qian, Pei-Yuan
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 406-416
- ISSN:
- 0095-3628
- Subject:
- biofilm; biofouling; genes; metagenomics; microbial communities; microorganisms; ribosomal RNA; seawater; species diversity; toxicity; transporters; transposases; zinc; Red Sea
- Abstract:
- ... Biofilms are a significant source of marine biofouling. Marine biofilm communities are established when microorganisms adhere to immersed surfaces. Despite the microbe-inhibiting effect of zinc surfaces, microbes can still attach to the surface and form biofilms. However, the diversity of biofilm-forming microbes that can attach to zinc surfaces and their common functional features remain elusive. ...
- DOI:
- 10.1007/s00248-018-01313-3
-
https://dx.doi.org/10.1007/s00248-018-01313-3
- Author:
- Ullah, Abid; Akbar, Adnan; Luo, Qingqing; Khan, Aamir Hamid; Manghwar, Hakim; Shaban, Muhammad; Yang, Xiyan
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 429-439
- ISSN:
- 0095-3628
- Subject:
- Acidobacteria; Actinobacteria; Chloroflexi; Cyanobacteria; DNA; Gemmatimonadetes; Gossypium hirsutum; Proteobacteria; bacteria; bacterial communities; climate change; community structure; cotton; drought; drought tolerance; flowering; fungi; genes; high-throughput nucleotide sequencing; microbiome; rhizosphere; ribosomal RNA; soil; soil microorganisms; species diversity; water stress
- Abstract:
- ... Climate change contributes to drought stress and subsequently affects crop growth, development, and yield. The microbial community, such as fungi and bacteria in the rhizosphere, is of special importance to plant productivity. In this study, soil collected from a cotton research field was used to grow cotton plants (Gossypium hirsutum cv. Jin668) under controlled environment conditions. Drought st ...
- DOI:
- 10.1007/s00248-018-1260-7
-
https://dx.doi.org/10.1007/s00248-018-1260-7
- Author:
- Lupatini, Manoeli; Suleiman, Afnan K. A.; Jacques, Rodrigo J. S.; Lemos, Leandro N.; Pylro, Victor S.; Van Veen, Johannes A.; Kuramae, Eiko E.; Roesch, Luiz F. W.
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 460-470
- ISSN:
- 0095-3628
- Subject:
- genes; grassland soils; grasslands; messenger RNA; microbial communities; ribosomal RNA; soil ecology; temperature
- Abstract:
- ... Moisture and temperature play important roles in the assembly and functioning of prokaryotic communities in soil. However, how moisture and temperature regulate the function of niche- versus neutral-based processes during the assembly of these communities has not been examined considering both the total microbial community and the sole active portion with potential for growth in native subtropical ...
- DOI:
- 10.1007/s00248-018-1310-1
-
https://dx.doi.org/10.1007/s00248-018-1310-1
- Author:
- Bai, Mohan; Sen, Biswarup; Wang, Qiuzhen; Xie, Yunxuan; He, Yaodong; Wang, Guangyi
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 394-405
- ISSN:
- 0095-3628
- Subject:
- Labyrinthulomycetes; biogeochemical cycles; coastal water; genes; habitats; nitrogen; oligodeoxyribonucleotides; phosphates; population dynamics; protists; quantitative polymerase chain reaction; rapid methods; ribosomal RNA; river deltas; rivers
- Abstract:
- ... The heterotrophic labyrinthulomycete protists have long been known to play an important role in the nutrient cycling of coastal seawater. Yet, their spatiotemporal abundance and diversity in polluted coastal waters remain poorly discussed, due in part to the paucity of a rapid detection method. To this end, we developed a qPCR detection method based on a newly designed primer pair targeting their ...
- DOI:
- 10.1007/s00248-018-1235-8
-
https://dx.doi.org/10.1007/s00248-018-1235-8
- Author:
- Bag, Satyabrata; Ghosh, Tarini Shankar; Banerjee, Sayantan; Mehta, Ojasvi; Verma, Jyoti; Dayal, Mayanka; Desigamani, Anbumani; Kumar, Pawan; Saha, Bipasa; Kedia, Saurabh; Ahuja, Vineet; Ramamurthy, Thandavarayan; Das, Bhabatosh
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 546-557
- ISSN:
- 0095-3628
- Subject:
- anti-infective agents; antibiotic resistance; chromosomes; digestive system; disease control; drugs; ecosystems; enteropathogens; genetic traits; genotype; health services; horizontal gene transfer; humans; infectious diseases; interspersed repetitive sequences; intestinal microorganisms; livestock; multiple drug resistance; phenotype; progeny; resistance genes; virulent strains
- Abstract:
- ... Antimicrobial resistance (AMR) among bacterial species that resides in complex ecosystems is a natural phenomenon. Indiscriminate use of antimicrobials in healthcare, livestock, and agriculture provides an evolutionary advantage to the resistant variants to dominate the ecosystem. Ascendency of resistant variants threatens the efficacy of most, if not all, of the antimicrobial drugs commonly used ...
- DOI:
- 10.1007/s00248-018-1228-7
-
https://dx.doi.org/10.1007/s00248-018-1228-7
- Author:
- Kearns, Patrick J.; Bulseco-McKim, Ashley N.; Hoyt, Helen; Angell, John H.; Bowen, Jennifer L.
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 358-369
- ISSN:
- 0095-3628
- Subject:
- bacteria; carbon; coastal sediments; denitrifying microorganisms; ecosystems; fungal communities; fungi; habitats; macrophytes; nitrates; nitrogen; nutrients; organic matter; salt marshes
- Abstract:
- ... Enrichment of ecosystems with excess nutrients is occurring at an alarming rate and has fundamentally altered ecosystems worldwide. Salt marshes, which lie at the land-sea interface, are highly effective at removing anthropogenic nutrients through the action of macrophytes and through microbial processes in coastal sediments. The response of salt marsh bacteria to excess nitrogen has been document ...
- DOI:
- 10.1007/s00248-018-1223-z
-
https://dx.doi.org/10.1007/s00248-018-1223-z
- Author:
- Broman, Elias; Li, Lingni; Fridlund, Jimmy; Svensson, Fredrik; Legrand, Catherine; Dopson, Mark
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 288-303
- ISSN:
- 0095-3628
- Subject:
- Archaea; Bacillariophyceae; algal blooms; autumn; benthic organisms; biomass; coastal sediments; community structure; dissolved oxygen; fish; iron; microbial communities; microorganisms; mortality; niches; nitrates; nitrification; nitrites; nitrogen cycle; nucleotide sequences; nutrient content; oxygen; phytoplankton; ribosomal RNA; spring; summer; weather; Baltic Sea
- Abstract:
- ... Two annual Baltic Sea phytoplankton blooms occur in spring and summer. The bloom intensity is determined by nutrient concentrations in the water, while the period depends on weather conditions. During the course of the bloom, dead cells sink to the sediment where their degradation consumes oxygen to create hypoxic zones (< 2 mg/L dissolved oxygen). These zones prevent the establishment of benthic ...
- DOI:
- 10.1007/s00248-018-1229-6
- PubMed:
- 30019110
- PubMed Central:
- PMC6394492
-
https://dx.doi.org/10.1007/s00248-018-1229-6
- Author:
- Miranda, Victoria; Rothen, Carolina; Yela, Natalia; Aranda-Rickert, Adriana; Barros, Johana; Calcagno, Javier; Fracchia, Sebastián
- Source:
- Microbial ecology 2019 v.77 no.2 pp. 451-459
- ISSN:
- 0095-3628
- Subject:
- Ctenomys; burrowing; burrows; ecosystems; endophytes; excretion; field capacity; fungi; landscapes; mixing; nutrients; organic matter; physicochemical properties; rodents; shrubs; soil heterogeneity; texture; vesicular arbuscular mycorrhizae; Argentina
- Abstract:
- ... Subterranean rodents are considered major soil engineers, as they can locally modify soil properties by their burrowing activities. In this study, the effect of a subterranean rodent of the genus Ctenomys on soil properties and root endophytic fungal propagules in a shrub desert of northwest Argentina was examined. Our main goal was to include among root endophytic fungi not only arbuscular mycorr ...
- DOI:
- 10.1007/s00248-018-1227-8
-
https://dx.doi.org/10.1007/s00248-018-1227-8