Microbial Community Structure and Functional Potential Along a Hypersaline Gradient

Kimbrel, Jeffrey A.; Ballor, Nicholas; Wu, Yu-Wei; David, Maude M.; Hazen, Terry C.; Simmons, Blake A.; Singer, Steven W.; Jansson, Janet K.

doi:10.3389/fmicb.2018.01492

Title: Microbial Community Structure and Functional Potential Along a Hypersaline Gradient

Journal Article · Tue Jul 10 00:00:00 EDT 2018 · Frontiers in Microbiology

DOI:https://doi.org/10.3389/fmicb.2018.01492· OSTI ID:1478348

Kimbrel, Jeffrey A.; Ballor, Nicholas; Wu, Yu-Wei; David, Maude M.; Hazen, Terry C.; Simmons, Blake A.; Singer, Steven W.; Jansson, Janet K.

© 2018 Kimbrel, Ballor, Wu, David, Hazen, Simmons, Singer and Jansson. Salinity is one of the strongest environmental drivers of microbial evolution and community composition. Here we aimed to determine the impact of salt concentrations (2.5, 7.5, and 33.2%) on the microbial community structure of reclaimed saltern ponds near San Francisco, California, and to discover prospective enzymes with potential biotechnological applications. Community compositions were determined by 16S rRNA amplicon sequencing revealing both higher richness and evenness in the pond sediments compared to the water columns. Co-occurrence network analysis additionally uncovered the presence of microbial seed bank communities, potentially primed to respond to rapid changes in salinity. In addition, functional annotation of shotgun metagenomic DNA showed different capabilities if the microbial communities at different salinities for methanogenesis, amino acid metabolism, and carbohydrate-active enzymes. There was an overall shift with increasing salinity in the functional potential for starch degradation, and a decrease in degradation of cellulose and other oligosaccharides. Further, many carbohydrate-active enzymes identified have acidic isoelectric points that have potential biotechnological applications, including deconstruction of biofuel feedstocks under high ionic conditions. Metagenome-assembled genomes (MAGs) of individual halotolerant and halophilic microbes were binned revealing a variety of carbohydrate-degrading potential of individual pond inhabitants.

View Journal Article

Cite

Export

Save

Research Organization:: Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

DOE Contract Number:: AC02-05CH11231

OSTI ID:: 1478348

Journal Information:: Frontiers in Microbiology, Vol. 9, Issue JUL; ISSN 1664-302X

Publisher:: Frontiers Research Foundation

Country of Publication:: United States

Language:: English

References (94)

Microbial interactions: from networks to models Faust, Karoline; Raes, Jeroen Nature Reviews Microbiology, Vol. 10, Issue 8 https://doi.org/10.1038/nrmicro2832	journal	July 2012
Global patterns in bacterial diversity Lozupone, C. A.; Knight, R. Proceedings of the National Academy of Sciences, Vol. 104, Issue 27 https://doi.org/10.1073/pnas.0611525104	journal	June 2007
Comparative genomics of the marine bacterial genus G laciecola reveals the high degree of genomic diversity and genomic characteristic for cold adaptation : Comparative genomics of the marine genus Qin, Qi-Long; Xie, Bin-Bin; Yu, Yong Environmental Microbiology, Vol. 16, Issue 6 https://doi.org/10.1111/1462-2920.12318	journal	November 2013
Identification of GH15 Family Thermophilic Archaeal Trehalases That Function within a Narrow Acidic-pH Range Sakaguchi, Masayoshi; Shimodaira, Satoru; Ishida, Shin-nosuke Applied and Environmental Microbiology, Vol. 81, Issue 15 https://doi.org/10.1128/AEM.00956-15	journal	May 2015
Genome Sequence of Halomonas sp. Strain KO116, an Ionic Liquid-Tolerant Marine Bacterium Isolated from a Lignin-Enriched Seawater Microcosm O’Dell, Kaela B.; Woo, Hannah L.; Utturkar, Sagar Genome Announcements, Vol. 3, Issue 3 https://doi.org/10.1128/genomeA.00402-15	journal	May 2015
Characterization of a metagenome-derived halotolerant cellulase Voget, S.; Steele, H. L.; Streit, W. R. Journal of Biotechnology, Vol. 126, Issue 1, p. 26-36 https://doi.org/10.1016/j.jbiotec.2006.02.011	journal	October 2006
New Abundant Microbial Groups in Aquatic Hypersaline Environments Ghai, Rohit; Pašić, Lejla; Fernández, Ana Beatriz Scientific Reports, Vol. 1, Issue 1 https://doi.org/10.1038/srep00135	journal	October 2011
Characterization and radiation resistance of new isolates of Rubrobacter radiotolerans and Rubrobacter xylanophilus Ferreira, A. C.; Nobre, M. F.; Moore, E. Extremophiles, Vol. 3, Issue 4 https://doi.org/10.1007/s007920050121	journal	November 1999
Bacterial chitin utilisation at extremely haloalkaline conditions Sorokin, D. Y.; Tourova, T. P.; Sukhacheva, M. V. Extremophiles, Vol. 16, Issue 6 https://doi.org/10.1007/s00792-012-0484-6	journal	September 2012
The ade4 Package: Implementing the Duality Diagram for Ecologists Dray, Stéphane; Dufour, Anne-Béatrice Journal of Statistical Software, Vol. 22, Issue 4 https://doi.org/10.18637/jss.v022.i04	journal	January 2007
Glycosyltransferases and oligosaccharyltransferases in Archaea: putative components of the N -glycosylation pathway in the third domain of life Magidovich, Hilla; Eichler, Jerry FEMS Microbiology Letters, Vol. 300, Issue 1 https://doi.org/10.1111/j.1574-6968.2009.01775.x	journal	November 2009
ggplot2 Wickham, Hadley Springer New York, NY https://doi.org/10.1007/978-0-387-98141-3	book	January 2009
Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea Bowers, Robert M.; Kyrpides, Nikos C.; Stepanauskas, Ramunas Nature Biotechnology, Vol. 35, Issue 8 https://doi.org/10.1038/nbt.3893	journal	August 2017
ChloroplastDB: the Chloroplast Genome Database Cui, L. Nucleic Acids Research, Vol. 34, Issue 90001 https://doi.org/10.1093/nar/gkj055	journal	January 2006
Thiohalobacter thiocyanaticus gen. nov., sp. nov., a moderately halophilic, sulfur-oxidizing gammaproteobacterium from hypersaline lakes, that utilizes thiocyanate Sorokin, D. Yu.; Kovaleva, O. L.; Tourova, T. P. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, Vol. 60, Issue 2 https://doi.org/10.1099/ijs.0.012880-0	journal	August 2009
Phylogenetic Distribution of Potential Cellulases in Bacteria Berlemont, Renaud; Martiny, Adam C. Applied and Environmental Microbiology, Vol. 79, Issue 5 https://doi.org/10.1128/AEM.03305-12	journal	December 2012
Fast and accurate short read alignment with Burrows-Wheeler transform Li, H.; Durbin, R. Bioinformatics, Vol. 25, Issue 14 https://doi.org/10.1093/bioinformatics/btp324	journal	May 2009
Applying metagenomics for the identification of bacterial cellulases that are stable in ionic liquids Pottkämper, Julia; Barthen, Peter; Ilmberger, Nele Green Chemistry, Vol. 11, Issue 7 https://doi.org/10.1039/b820157a	journal	January 2009
Diversity of halophilic microorganisms: Environments, phylogeny, physiology, and applications Oren, A. Journal of Industrial Microbiology & Biotechnology, Vol. 28, Issue 1 https://doi.org/10.1038/sj/jim/7000176	journal	January 2002
Spatial scales of bacterial community diversity at cold seeps (Eastern Mediterranean Sea) Pop Ristova, Petra; Wenzhöfer, Frank; Ramette, Alban The ISME Journal, Vol. 9, Issue 6 https://doi.org/10.1038/ismej.2014.217	journal	December 2014
Data, information, knowledge and principle: back to metabolism in KEGG Kanehisa, Minoru; Goto, Susumu; Sato, Yoko Nucleic Acids Research, Vol. 42, Issue D1 https://doi.org/10.1093/nar/gkt1076	journal	November 2013
Demonstrating microbial co-occurrence pattern analyses within and between ecosystems Williams, Ryan J.; Howe, Adina; Hofmockel, Kirsten S. Frontiers in Microbiology, Vol. 5 https://doi.org/10.3389/fmicb.2014.00358	journal	July 2014
Comparison of dilute acid and ionic liquid pretreatment of switchgrass: Biomass recalcitrance, delignification and enzymatic saccharification Li, Chenlin; Knierim, Bernhard; Manisseri, Chithra Bioresource Technology, Vol. 101, Issue 13 https://doi.org/10.1016/j.biortech.2009.10.066	journal	July 2010
Seasonal fluctuations in ionic concentrations drive microbial succession in a hypersaline lake community Podell, Sheila; Emerson, Joanne B.; Jones, Claudia M. The ISME Journal, Vol. 8, Issue 5 https://doi.org/10.1038/ismej.2013.221	journal	December 2013
Genomic analysis reveals the biotechnological and industrial potential of levan producing halophilic extremophile, Halomonas smyrnensis AAD6T Diken, Elif; Ozer, Tugba; Arikan, Muzaffer SpringerPlus, Vol. 4, Issue 1 https://doi.org/10.1186/s40064-015-1184-3	journal	August 2015
Biodegradation of Organic Pollutants by Halophilic Bacteria and Archaea Le Borgne, Sylvie; Paniagua, Dayanira; Vazquez-Duhalt, Rafael Journal of Molecular Microbiology and Biotechnology, Vol. 15, Issue 2-3 https://doi.org/10.1159/000121323	journal	January 2008
Naive Bayesian Classifier for Rapid Assignment of rRNA Sequences into the New Bacterial Taxonomy Wang, Q.; Garrity, G. M.; Tiedje, J. M. Applied and Environmental Microbiology, Vol. 73, Issue 16 https://doi.org/10.1128/AEM.00062-07	journal	June 2007
Life at high salt concentrations, intracellular KCl concentrations, and acidic proteomes Oren, Aharon Frontiers in Microbiology, Vol. 4 https://doi.org/10.3389/fmicb.2013.00315	journal	January 2013
Prokaryotic Community Diversity Along an Increasing Salt Gradient in a Soda Ash Concentration Pond Simachew, Addis; Lanzén, Anders; Gessesse, Amare Microbial Ecology, Vol. 71, Issue 2 https://doi.org/10.1007/s00248-015-0675-7	journal	September 2015
Living with salt: metabolic and phylogenetic diversity of archaea inhabiting saline ecosystems Andrei, Adrian-Ştefan; Banciu, Horia Leonard; Oren, Aharon FEMS Microbiology Letters, Vol. 330, Issue 1 https://doi.org/10.1111/j.1574-6968.2012.02526.x	journal	March 2012
Gene cloning, expression and characterization of a new cold-active and salt-tolerant endo-β-1,4-xylanase from marine Glaciecola mesophila KMM 241 Guo, Bing; Chen, Xiu-Lan; Sun, Cai-Yun Applied Microbiology and Biotechnology, Vol. 84, Issue 6 https://doi.org/10.1007/s00253-009-2056-y	journal	June 2009
Prokaryotic genetic diversity throughout the salinity gradient of a coastal solar saltern Benlloch, Susana; Lopez-Lopez, Arantxa; Casamayor, Emilio O. Environmental Microbiology, Vol. 4, Issue 6 https://doi.org/10.1046/j.1462-2920.2002.00306.x	journal	June 2002
Identification of a haloalkaliphilic and thermostable cellulase with improved ionic liquid tolerance Zhang, Tao; Datta, Supratim; Eichler, Jerry Green Chemistry, Vol. 13, Issue 8 https://doi.org/10.1039/c1gc15193b	journal	January 2011
Prodigal: prokaryotic gene recognition and translation initiation site identification Hyatt, Doug; Chen, Gwo-Liang; LoCascio, Philip F. BMC Bioinformatics, Vol. 11, Issue 1 https://doi.org/10.1186/1471-2105-11-119	journal	March 2010
Relationship of sequence and structure to specificity in the α-amylase family of enzymes MacGregor, E. Ann; Janeček, Štefan; Svensson, Birte Biochimica et Biophysica Acta (BBA) - Protein Structure and Molecular Enzymology, Vol. 1546, Issue 1 https://doi.org/10.1016/S0167-4838(00)00302-2	journal	March 2001
Prokaryotic taxonomic and metabolic diversity of an intermediate salinity hypersaline habitat assessed by metagenomics Fernández, Ana B.; Ghai, Rohit; Martin-Cuadrado, Ana-Belen FEMS Microbiology Ecology, Vol. 88, Issue 3 https://doi.org/10.1111/1574-6941.12329	journal	April 2014
dbCAN: a web resource for automated carbohydrate-active enzyme annotation Yin, Yanbin; Mao, Xizeng; Yang, Jincai Nucleic Acids Research, Vol. 40, Issue W1 https://doi.org/10.1093/nar/gks479	journal	May 2012
Diversity of prokaryotes and methanogenesis in deep subsurface sediments from the Nankai Trough, Ocean Drilling Program Leg 190 Newberry, Carole J.; Webster, Gordon; Cragg, Barry A. Environmental Microbiology, Vol. 6, Issue 3 https://doi.org/10.1111/j.1462-2920.2004.00568.x	journal	March 2004
MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets Wu, Yu-Wei; Simmons, Blake A.; Singer, Steven W. Bioinformatics, Vol. 32, Issue 4 https://doi.org/10.1093/bioinformatics/btv638	journal	October 2015
Cyanobacterial reuse of extracellular organic carbon in microbial mats Stuart, Rhona K.; Mayali, Xavier; Lee, Jackson Z. The ISME Journal, Vol. 10, Issue 5 https://doi.org/10.1038/ismej.2015.180	journal	October 2015
CheckM: assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes Parks, Donovan H.; Imelfort, Michael; Skennerton, Connor T. Genome Research, Vol. 25, Issue 7 https://doi.org/10.1101/gr.186072.114	journal	May 2015
Potential halophilic cellulases for in situ enzymatic saccharification of ionic liquids pretreated lignocelluloses Gunny, Ahmad Anas Nagoor; Arbain, Dachyar; Edwin Gumba, Rizo Bioresource Technology, Vol. 155 https://doi.org/10.1016/j.biortech.2013.12.101	journal	March 2014
Primer and platform effects on 16S rRNA tag sequencing Tremblay, Julien; Singh, Kanwar; Fern, Alison Frontiers in Microbiology, Vol. 6 https://doi.org/10.3389/fmicb.2015.00771	journal	August 2015
Molecular mechanisms underlying roseobacter–phytoplankton symbioses Geng, Haifeng; Belas, Robert Current Opinion in Biotechnology, Vol. 21, Issue 3 https://doi.org/10.1016/j.copbio.2010.03.013	journal	June 2010
Uptake and synthesis of compatible solutes as microbial stress responses to high-osmolality environments Kempf, Bettina; Bremer, E. Archives of Microbiology, Vol. 170, Issue 5 https://doi.org/10.1007/s002030050649	journal	September 1998
Extremophiles as a source for novel enzymes van den Burg, Bertus Current Opinion in Microbiology, Vol. 6, Issue 3 https://doi.org/10.1016/S1369-5274(03)00060-2	journal	June 2003
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data McMurdie, Paul J.; Holmes, Susan PLoS ONE, Vol. 8, Issue 4 https://doi.org/10.1371/journal.pone.0061217	journal	April 2013
Light Regimes Shape Utilization of Extracellular Organic C and N in a Cyanobacterial Biofilm Stuart, Rhona K.; Mayali, Xavier; Boaro, Amy A. mBio, Vol. 7, Issue 3 https://doi.org/10.1128/mBio.00650-16	journal	June 2016
Salt-activated endoglucanase of a strain of alkaliphilic Bacillus agaradhaerens Hirasawa, Kazumichi; Uchimura, Kohsuke; Kashiwa, Masami Antonie van Leeuwenhoek, Vol. 89, Issue 2 https://doi.org/10.1007/s10482-005-9023-0	journal	April 2006
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth Peng, Y.; Leung, H. C. M.; Yiu, S. M. Bioinformatics, Vol. 28, Issue 11 https://doi.org/10.1093/bioinformatics/bts174	journal	April 2012
Recent trends in ionic liquid (IL) tolerant enzymes and microorganisms for biomass conversion Portillo, Maria del Carmen; Saadeddin, Anas Critical Reviews in Biotechnology, Vol. 35, Issue 3 https://doi.org/10.3109/07388551.2013.843069	journal	October 2013
Systematic Identification of Gene Families for Use as “Markers” for Phylogenetic and Phylogeny-Driven Ecological Studies of Bacteria and Archaea and Their Major Subgroups Wu, Dongying; Jospin, Guillaume; Eisen, Jonathan A. PLoS ONE, Vol. 8, Issue 10 https://doi.org/10.1371/journal.pone.0077033	journal	October 2013
How to be moderately halophilic with broad salt tolerance: clues from the genome of Chromohalobacter salexigens Oren, Aharon; Larimer, Frank; Richardson, Paul Extremophiles, Vol. 9, Issue 4 https://doi.org/10.1007/s00792-005-0442-7	journal	May 2005
Complete Genome Sequence of the Marine Cellulose- and Xylan-Degrading Bacterium Glaciecolasp. Strain 4H-3-7+YE-5 Klippel, B.; Lochner, A.; Bruce, D. C. Journal of Bacteriology, Vol. 193, Issue 17 https://doi.org/10.1128/JB.05468-11	journal	June 2011
Microbial Diversity in Deep-sea Methane Seep Sediments Presented by SSU rRNA Gene Tag Sequencing Nunoura, Takuro; Takaki, Yoshihiro; Kazama, Hiromi Microbes and environments, Vol. 27, Issue 4 https://doi.org/10.1264/jsme2.ME12032	journal	January 2012
Trehalose/2-sulfotrehalose biosynthesis and glycine-betaine uptake are widely spread mechanisms for osmoadaptation in the Halobacteriales Youssef, Noha H.; Savage-Ashlock, Kristen N.; McCully, Alexandra L. The ISME Journal, Vol. 8, Issue 3 https://doi.org/10.1038/ismej.2013.165	journal	September 2013
The carbohydrate-active enzymes database (CAZy) in 2013 Lombard, Vincent; Golaconda Ramulu, Hemalatha; Drula, Elodie Nucleic Acids Research, Vol. 42, Issue D1 https://doi.org/10.1093/nar/gkt1178	journal	November 2013
Genome sequences of rare, uncultured bacteria obtained by differential coverage binning of multiple metagenomes Albertsen, Mads; Hugenholtz, Philip; Skarshewski, Adam Nature Biotechnology, Vol. 31, Issue 6 https://doi.org/10.1038/nbt.2579	journal	May 2013
Ecological Patterns Among Bacteria and Microbial Eukaryotes Derived from Network Analyses in a Low-Salinity Lake Jones, Adriane Clark; Hambright, K. David; Caron, David A. Microbial Ecology, Vol. 75, Issue 4 https://doi.org/10.1007/s00248-017-1087-7	journal	November 2017
Using network analysis to explore co-occurrence patterns in soil microbial communities Barberán, Albert; Bates, Scott T.; Casamayor, Emilio O. The ISME Journal, Vol. 6, Issue 2 https://doi.org/10.1038/ismej.2011.119	journal	September 2011
Halophilic hydrolases as a new tool for the biotechnological industries Delgado-García, Mariana; Valdivia-Urdiales, Blanca; Aguilar-González, Cristóbal Noe Journal of the Science of Food and Agriculture, Vol. 92, Issue 13 https://doi.org/10.1002/jsfa.5860	journal	August 2012
Variability in habitat value of commercial salt production ponds: implications for waterbird management and tidal marsh restoration planning Athearn, Nicole D.; Takekawa, John Y.; Bluso-Demers, Jill D. Hydrobiologia, Vol. 697, Issue 1 https://doi.org/10.1007/s10750-012-1177-y	journal	May 2012
Genomic Potential for Polysaccharide Deconstruction in Bacteria Berlemont, Renaud; Martiny, Adam C. Applied and Environmental Microbiology, Vol. 81, Issue 4 https://doi.org/10.1128/AEM.03718-14	journal	December 2014
BLAST+: architecture and applications Camacho, Christiam; Coulouris, George; Avagyan, Vahram BMC Bioinformatics, Vol. 10, Issue 1 https://doi.org/10.1186/1471-2105-10-421	journal	January 2009
Deciphering microbial interactions and detecting keystone species with co-occurrence networks Berry, David; Widder, Stefanie Frontiers in Microbiology, Vol. 5 https://doi.org/10.3389/fmicb.2014.00219	journal	May 2014
Microbial diversity of hypersaline environments: a metagenomic approach Ventosa, Antonio; de la Haba, Rafael R.; Sánchez-Porro, Cristina Current Opinion in Microbiology, Vol. 25 https://doi.org/10.1016/j.mib.2015.05.002	journal	June 2015
Genome-wide analysis of lysine catabolism in bacteria reveals new connections with osmotic stress resistance Neshich, Izabella AP; Kiyota, Eduardo; Arruda, Paulo The ISME Journal, Vol. 7, Issue 12 https://doi.org/10.1038/ismej.2013.123	journal	July 2013
Microbial seed banks: the ecological and evolutionary implications of dormancy Lennon, Jay T.; Jones, Stuart E. Nature Reviews Microbiology, Vol. 9, Issue 2 https://doi.org/10.1038/nrmicro2504	journal	January 2011
Xyloglucan Is Recognized by Carbohydrate-binding Modules That Interact with β-Glucan Chains Najmudin, Shabir; Guerreiro, Catarina I. P. D.; Carvalho, Ana L. Journal of Biological Chemistry, Vol. 281, Issue 13 https://doi.org/10.1074/jbc.M510559200	journal	November 2005
Integrative analysis of environmental sequences using MEGAN4 Huson, D. H.; Mitra, S.; Ruscheweyh, H. -J. Genome Research, Vol. 21, Issue 9 https://doi.org/10.1101/gr.120618.111	journal	June 2011
Recent studies in microbial degradation of petroleum hydrocarbons in hypersaline environments Fathepure, Babu Z. Frontiers in Microbiology, Vol. 5 https://doi.org/10.3389/fmicb.2014.00173	journal	April 2014
Sialic Acid Recognition by Vibrio cholerae Neuraminidase Moustafa, Ibrahim; Connaris, Helen; Taylor, Margaret Journal of Biological Chemistry, Vol. 279, Issue 39 https://doi.org/10.1074/jbc.M404965200	journal	June 2004
FOAM (Functional Ontology Assignments for Metagenomes): a Hidden Markov Model (HMM) database with environmental focus Prestat, Emmanuel; David, Maude M.; Hultman, Jenni Nucleic Acids Research, Vol. 42, Issue 19 https://doi.org/10.1093/nar/gku702	journal	September 2014
A novel salt-tolerant endo-β-1,4-glucanase Cel5A in Vibrio sp. G21 isolated from mangrove soil Gao, Zhaoming; Ruan, Lingwei; Chen, Xiulan Applied Microbiology and Biotechnology, Vol. 87, Issue 4, p. 1373-1382 https://doi.org/10.1007/s00253-010-2554-y	journal	April 2010
Genome-Based Taxonomic Classification of Bacteroidetes Hahnke, Richard L.; Meier-Kolthoff, Jan P.; García-López, Marina Frontiers in Microbiology, Vol. 7 https://doi.org/10.3389/fmicb.2016.02003	journal	December 2016
Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2 Love, Michael I.; Huber, Wolfgang; Anders, Simon Genome Biology, Vol. 15, Issue 12 https://doi.org/10.1186/s13059-014-0550-8	journal	December 2014
Metagenomics reveals sediment microbial community response to Deepwater Horizon oil spill Mason, Olivia U.; Scott, Nicole M.; Gonzalez, Antonio The ISME Journal, Vol. 8, Issue 7 https://doi.org/10.1038/ismej.2013.254	journal	January 2014
Expansion of the enzymatic repertoire of the CAZy database to integrate auxiliary redox enzymes Levasseur, Anthony; Drula, Elodie; Lombard, Vincent Biotechnology for Biofuels, Vol. 6, Issue 1, Article No. 41 https://doi.org/10.1186/1754-6834-6-41	journal	January 2013
Identifying numerically abundant culturable bacteria from complex communities: an example from a lignin enrichment culture. González, J. M.; Whitman, W. B.; Hodson, R. E. Applied and environmental microbiology, Vol. 62, Issue 12 https://doi.org/10.1128/AEM.62.12.4433-4440.1996	journal	January 1996
Bioenergetic Aspects of Halophilism Oren, Aharon Microbiology and Molecular Biology Reviews, Vol. 63, Issue 2 https://doi.org/10.1128/MMBR.63.2.334-348.1999	journal	June 1999
Biology of Moderately Halophilic Aerobic Bacteria Ventosa, Antonio; Nieto, Joaquín J.; Oren, Aharon Microbiology and Molecular Biology Reviews, Vol. 62, Issue 2 https://doi.org/10.1128/MMBR.62.2.504-544.1998	journal	June 1998
Diversity of halophilic microorganisms: Environments, phylogeny, physiology, and applications Oren, A. Journal of Industrial Microbiology & Biotechnology, Vol. 28, Issue 1 https://doi.org/10.1038/sj.jim.7000176	journal	January 2002
Molecular profiling of microbial community structure and their CAZymes via metagenomics, from Tsomgo lake in the Eastern Himalayas Rai, Aditi; Bhattacharjee, Arindam Archives of Microbiology, Vol. 203, Issue 6 https://doi.org/10.1007/s00203-021-02278-7	journal	April 2021
Diversity and composition of the North Sikkim hot spring mycobiome using a culture-independent method Das, Sayak; Roy, Goshaidas; Najar, Ishfaq Nabi Folia Microbiologica, Vol. 66, Issue 3 https://doi.org/10.1007/s12223-021-00859-z	journal	March 2021
Coriander Genomics Database: a genomic, transcriptomic, and metabolic database for coriander Song, Xiaoming; Nie, Fulei; Chen, Wei Horticulture Research, Vol. 7, Issue 1 https://doi.org/10.1038/s41438-020-0261-0	journal	April 2020
Biogeographical patterns and mechanisms of microbial community assembly that underlie successional biocrusts across northern China Li, Yuanlong; Hu, Chunxiang npj Biofilms and Microbiomes, Vol. 7, Issue 1 https://doi.org/10.1038/s41522-021-00188-6	journal	February 2021
Datura genome reveals duplications of psychoactive alkaloid biosynthetic genes and high mutation rate following tissue culture Rajewski, Alex; Carter-House, Derreck; Stajich, Jason BMC Genomics, Vol. 22, Issue 1 https://doi.org/10.1186/s12864-021-07489-2	journal	March 2021
Primer and platform effects on 16S rRNA tag sequencing Alison, Fern,; Feng, Chen,; Julien, Tremblay, The University of North Carolina at Chapel Hill University Libraries https://doi.org/10.17615/wgfs-e050	text	January 2015
Spatial scales of bacterial community diversity at cold seeps (Eastern Mediterranean Sea) Pop Ristova, Petra; Wenzhöfer, Frank; Ramette, Alban Nature Publishing Group https://doi.org/10.7892/boris.125481	text	January 2015
Erratum: Using network analysis to explore co-occurrence patterns in soil microbial communities Barberán, Albert; Bates, Scott T.; Casamayor, Emilio O. The ISME Journal, Vol. 8, Issue 4 https://doi.org/10.1038/ismej.2013.236	journal	March 2014
Salinimonas marina sp. nov. Isolated from Jeju Island Marine Sediment Kim, Minji; Lee, Ki-Eun; Cha, In-Tae Current Microbiology, Vol. 78, Issue 8 https://doi.org/10.1007/s00284-021-02576-9	journal	June 2021
Niche partitioning of the ubiquitous and ecologically relevant NS5 marine group Priest, Taylor; Heins, Anneke; Harder, Jens The ISME Journal, Vol. 16, Issue 6 https://doi.org/10.1038/s41396-022-01209-8	journal	February 2022
Targeted A-to-G base editing of chloroplast DNA in plants Mok, Young Geun; Hong, Sunghyun; Bae, Su-Ji Nature Plants, Vol. 8, Issue 12 https://doi.org/10.1038/s41477-022-01279-8	journal	December 2022
Genome-wide genetic diversity yields insights into genomic responses of candidate climate-selected loci in an Andean wetland plant Bertin, Angéline; Espinosa, Mara I.; Bustamante, Catalina A. Scientific Reports, Vol. 10, Issue 1 https://doi.org/10.1038/s41598-020-73976-3	journal	October 2020

Cited By (3)

Genome-Resolved Metagenomics Extends the Environmental Distribution of the Verrucomicrobia Phylum to the Deep Terrestrial Subsurface Nixon, Sophie L.; Daly, Rebecca A.; Borton, Mikayla A. mSphere, Vol. 4, Issue 6 https://doi.org/10.1128/msphere.00613-19	journal	December 2019
Applying Genome-Resolved Metagenomics to Deconvolute the Halophilic Microbiome Uritskiy, Gherman; DiRuggiero, Jocelyne Genes, Vol. 10, Issue 3 https://doi.org/10.3390/genes10030220	journal	March 2019
Arsenic Response of Three Altiplanic Exiguobacterium Strains With Different Tolerance Levels Against the Metalloid Species: A Proteomics Study Castro-Severyn, Juan; Pardo-Esté, Coral; Sulbaran, Yoelvis Frontiers in Microbiology, Vol. 10 https://doi.org/10.3389/fmicb.2019.02161	journal	September 2019

Figures / Tables (10)

Table 3 continued(p. 11)

Figure 5(p. 12)

Similar Records

Microbial Community Structure and Functional Potential Along a Hypersaline Gradient

Journal Article · Tue Jul 10 00:00:00 EDT 2018 · Frontiers in Microbiology · OSTI ID:1478348

Kimbrel, Jeffrey A.; Ballor, Nicholas; Wu, Yu-Wei; +5 more

Neotropical termite microbiomes as sources of novel plant cell wall degrading enzymes

Journal Article · Mon Mar 02 00:00:00 EST 2020 · Scientific Reports · OSTI ID:1478348

Romero Victorica, Matias; Soria, Marcelo A.; Batista-García, Ramón Alberto; +12 more

Microbial drivers of methane emissions from unrestored industrial salt ponds

Journal Article · Wed Jul 28 00:00:00 EDT 2021 · The ISME Journal · OSTI ID:1478348

Zhou, Jinglie; Theroux, Susanna M.; Bueno de Mesquita, Clifton P.; +3 more

Title: Microbial Community Structure and Functional Potential Along a Hypersaline Gradient

Citation Formats

References (94)

Cited By (3)

Figures / Tables (10)

Similar Records

Related Subjects