Literature DB >> 28334407

Organismal and spatial partitioning of energy and macronutrient transformations within a hypersaline mat.

Jennifer M Mobberley1, Stephen R Lindemann2,3, Hans C Bernstein1,4, James J Moran5, Ryan S Renslow1,4, Jerome Babauta4, Dehong Hu6, Haluk Beyenal4, William C Nelson1.   

Abstract

Phototrophic mat communities are model ecosystems for studying energy cycling and elemental transformations because complete biogeochemical cycles occur over millimeter-to-centimeter scales. Characterization of energy and nutrient capture within hypersaline phototrophic mats has focused on specific processes and organisms; however, little is known about community-wide distribution of and linkages between these processes. To investigate energy and macronutrient capture and flow through a structured community, the spatial and organismal distribution of metabolic functions within a compact hypersaline mat community from Hot Lake have been broadly elucidated through species-resolved metagenomics and geochemical, microbial diversity and metabolic gradient measurements. Draft reconstructed genomes of 34 abundant organisms revealed three dominant cyanobacterial populations differentially distributed across the top layers of the mat suggesting niche separation along light and oxygen gradients. Many organisms contained diverse functional profiles, allowing for metabolic response to changing conditions within the mat. Organisms with partial nitrogen and sulfur metabolisms were widespread indicating dependence on metabolite exchange. In addition, changes in community spatial structure were observed over the diel. These results indicate that organisms within the mat community have adapted to the temporally dynamic environmental gradients in this hypersaline mat through metabolic flexibility and fluid syntrophic interactions, including shifts in spatial arrangements. © FEMS 2017.

Entities:  

Keywords:  element transformations; hypersaline; magnesium sulfate; metagenomics; phototrophic; reconstructed genomes

Mesh:

Substances:

Year:  2017        PMID: 28334407      PMCID: PMC5812542          DOI: 10.1093/femsec/fix028

Source DB:  PubMed          Journal:  FEMS Microbiol Ecol        ISSN: 0168-6496            Impact factor:   4.194


  71 in total

1.  Fast algorithms for large-scale genome alignment and comparison.

Authors:  Arthur L Delcher; Adam Phillippy; Jane Carlton; Steven L Salzberg
Journal:  Nucleic Acids Res       Date:  2002-06-01       Impact factor: 16.971

Review 2.  Thermodynamic limits to microbial life at high salt concentrations.

Authors:  Aharon Oren
Journal:  Environ Microbiol       Date:  2010-11-05       Impact factor: 5.491

3.  Unexpected diversity and complexity of the Guerrero Negro hypersaline microbial mat.

Authors:  Ruth E Ley; J Kirk Harris; Joshua Wilcox; John R Spear; Scott R Miller; Brad M Bebout; Julia A Maresca; Donald A Bryant; Mitchell L Sogin; Norman R Pace
Journal:  Appl Environ Microbiol       Date:  2006-05       Impact factor: 4.792

4.  Fast gapped-read alignment with Bowtie 2.

Authors:  Ben Langmead; Steven L Salzberg
Journal:  Nat Methods       Date:  2012-03-04       Impact factor: 28.547

5.  Structural and functional analysis of a microbial mat ecosystem from a unique permanent hypersaline inland lake: 'La Salada de Chiprana' (NE Spain).

Authors:  Henk M Jonkers; Rebecca Ludwig; Rutger Wit; Olivier Pringault; Gerard Muyzer; Helge Niemann; Niko Finke; Dirk Beer
Journal:  FEMS Microbiol Ecol       Date:  2003-05-01       Impact factor: 4.194

6.  SINA: accurate high-throughput multiple sequence alignment of ribosomal RNA genes.

Authors:  Elmar Pruesse; Jörg Peplies; Frank Oliver Glöckner
Journal:  Bioinformatics       Date:  2012-05-03       Impact factor: 6.937

7.  Fermentation couples Chloroflexi and sulfate-reducing bacteria to Cyanobacteria in hypersaline microbial mats.

Authors:  Jackson Z Lee; Luke C Burow; Dagmar Woebken; R Craig Everroad; Mike D Kubo; Alfred M Spormann; Peter K Weber; Jennifer Pett-Ridge; Brad M Bebout; Tori M Hoehler
Journal:  Front Microbiol       Date:  2014-02-26       Impact factor: 5.640

8.  The epsomitic phototrophic microbial mat of Hot Lake, Washington: community structural responses to seasonal cycling.

Authors:  Stephen R Lindemann; James J Moran; James C Stegen; Ryan S Renslow; Janine R Hutchison; Jessica K Cole; Alice C Dohnalkova; Julien Tremblay; Kanwar Singh; Stephanie A Malfatti; Feng Chen; Susannah G Tringe; Haluk Beyenal; James K Fredrickson
Journal:  Front Microbiol       Date:  2013-11-13       Impact factor: 5.640

9.  Phototrophic biofilm assembly in microbial-mat-derived unicyanobacterial consortia: model systems for the study of autotroph-heterotroph interactions.

Authors:  Jessica K Cole; Janine R Hutchison; Ryan S Renslow; Young-Mo Kim; William B Chrisler; Heather E Engelmann; Alice C Dohnalkova; Dehong Hu; Thomas O Metz; Jim K Fredrickson; Stephen R Lindemann
Journal:  Front Microbiol       Date:  2014-04-07       Impact factor: 5.640

10.  GroopM: an automated tool for the recovery of population genomes from related metagenomes.

Authors:  Michael Imelfort; Donovan Parks; Ben J Woodcroft; Paul Dennis; Philip Hugenholtz; Gene W Tyson
Journal:  PeerJ       Date:  2014-09-30       Impact factor: 2.984

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  8 in total

1.  Disentangling the drivers of functional complexity at the metagenomic level in Shark Bay microbial mat microbiomes.

Authors:  Hon Lun Wong; Richard Allen White; Pieter T Visscher; James C Charlesworth; Xabier Vázquez-Campos; Brendan P Burns
Journal:  ISME J       Date:  2018-07-06       Impact factor: 10.302

2.  Primary and heterotrophic productivity relate to multikingdom diversity in a hypersaline mat.

Authors:  Hans C Bernstein; Colin J Brislawn; Karl Dana; Tobias Flores-Wentz; Alexandra B Cory; Sarah J Fansler; James K Fredrickson; James J Moran
Journal:  FEMS Microbiol Ecol       Date:  2017-10-01       Impact factor: 4.194

Review 3.  Targeting Persistent Biofilm Infections: Reconsidering the Topography of the Infection Site during Model Selection.

Authors:  Ilana Kolodkin-Gal; Malena Cohen-Cymberknoh; Gideon Zamir; Igor Tsesis; Eyal Rosen
Journal:  Microorganisms       Date:  2022-06-06

4.  Predicting Species-Resolved Macronutrient Acquisition during Succession in a Model Phototrophic Biofilm Using an Integrated 'Omics Approach.

Authors:  Stephen R Lindemann; Jennifer M Mobberley; Jessica K Cole; L M Markillie; Ronald C Taylor; Eric Huang; William B Chrisler; H S Wiley; Mary S Lipton; William C Nelson; James K Fredrickson; Margaret F Romine
Journal:  Front Microbiol       Date:  2017-06-13       Impact factor: 5.640

5.  Draft Genome Sequence of Cyanobacterium sp. Strain HL-69, Isolated from a Benthic Microbial Mat from a Magnesium Sulfate-Dominated Hypersaline Lake.

Authors:  J M Mobberley; M F Romine; J K Cole; Y Maezato; S R Lindemann; W C Nelson
Journal:  Genome Announc       Date:  2018-02-08

Review 6.  Applying Genome-Resolved Metagenomics to Deconvolute the Halophilic Microbiome.

Authors:  Gherman Uritskiy; Jocelyne DiRuggiero
Journal:  Genes (Basel)       Date:  2019-03-14       Impact factor: 4.096

7.  Distinct temporal diversity profiles for nitrogen cycling genes in a hyporheic microbiome.

Authors:  William C Nelson; Emily B Graham; Alex R Crump; Sarah J Fansler; Evan V Arntzen; David W Kennedy; James C Stegen
Journal:  PLoS One       Date:  2020-01-27       Impact factor: 3.240

8.  Biases in genome reconstruction from metagenomic data.

Authors:  William C Nelson; Benjamin J Tully; Jennifer M Mobberley
Journal:  PeerJ       Date:  2020-10-30       Impact factor: 2.984

  8 in total

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