Spatial turnover of soil viral populations and genotypes overlain by cohesive responses to moisture in grasslands.
distance–decay relationship
relic DNA
soil microbiome
soil virome
Journal
Proceedings of the National Academy of Sciences of the United States of America
ISSN: 1091-6490
Titre abrégé: Proc Natl Acad Sci U S A
Pays: United States
ID NLM: 7505876
Informations de publication
Date de publication:
08 Nov 2022
08 Nov 2022
Historique:
entrez:
2
11
2022
pubmed:
3
11
2022
medline:
5
11
2022
Statut:
ppublish
Résumé
Viruses shape microbial communities, food web dynamics, and carbon and nutrient cycling in diverse ecosystems. However, little is known about the patterns and drivers of viral community composition, particularly in soil, precluding a predictive understanding of viral impacts on terrestrial habitats. To investigate soil viral community assembly processes, here we analyzed 43 soil viromes from a rainfall manipulation experiment in a Mediterranean grassland in California. We identified 5,315 viral populations (viral operational taxonomic units [vOTUs] with a representative sequence ≥10 kbp) and found that viral community composition exhibited a highly significant distance-decay relationship within the 200-m
Identifiants
pubmed: 36322723
doi: 10.1073/pnas.2209132119
pmc: PMC9659419
doi:
Substances chimiques
Soil
0
Types de publication
Journal Article
Research Support, U.S. Gov't, Non-P.H.S.
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
e2209132119Références
Nat Microbiol. 2018 Aug;3(8):870-880
pubmed: 30013236
Nat Biotechnol. 2019 Jan;37(1):29-37
pubmed: 30556814
ISME J. 2017 Dec;11(12):2864-2868
pubmed: 28742071
Nat Rev Microbiol. 2017 Oct;15(10):579-590
pubmed: 28824177
Bioinformatics. 2010 Oct 1;26(19):2460-1
pubmed: 20709691
Microbiome. 2021 Nov 26;9(1):233
pubmed: 34836550
mSystems. 2021 Oct 26;6(5):e0061421
pubmed: 34491084
Nat Plants. 2021 Aug;7(8):1065-1077
pubmed: 34294907
Appl Environ Microbiol. 2019 Jul 1;85(14):
pubmed: 31076430
ISME J. 2013 Feb;7(2):384-94
pubmed: 23151641
Nature. 2017 Nov 23;551(7681):457-463
pubmed: 29088705
Microbiome. 2020 Jun 10;8(1):90
pubmed: 32522236
Genome Biol. 2009;10(3):R25
pubmed: 19261174
Bioinformatics. 2012 Dec 15;28(24):3211-7
pubmed: 23071270
mSphere. 2021 Oct 27;6(5):e0008521
pubmed: 34468166
Bioinformatics. 2015 May 15;31(10):1674-6
pubmed: 25609793
Proc Biol Sci. 2014 Feb 12;281(1780):20133299
pubmed: 24523277
PLoS One. 2015 Apr 14;10(4):e0122539
pubmed: 25875835
J Sci Food Agric. 2014 Sep;94(12):2362-71
pubmed: 24425529
iScience. 2022 Feb 10;25(3):103887
pubmed: 35243247
ISME J. 2008 Aug;2(8):805-14
pubmed: 18615117
Bioinformatics. 2014 Aug 1;30(15):2114-20
pubmed: 24695404
Genome Biol. 2014;15(12):550
pubmed: 25516281
Nature. 2021 Mar;591(7851):599-603
pubmed: 33762765
Microbiologyopen. 2019 Sep;8(9):e00851
pubmed: 31074596
Appl Environ Microbiol. 2007 Aug;73(16):5261-7
pubmed: 17586664
Viruses. 2021 Mar 18;13(3):
pubmed: 33803862
Proc Natl Acad Sci U S A. 2019 Dec 17;116(51):25900-25908
pubmed: 31772013
ISME J. 2017 Jun;11(6):1345-1358
pubmed: 28282041
Nat Microbiol. 2020 Feb;5(2):265-271
pubmed: 31819214
Proc Natl Acad Sci U S A. 2011 Mar 15;108 Suppl 1:4516-22
pubmed: 20534432
Nucleic Acids Res. 2013 Jan;41(Database issue):D590-6
pubmed: 23193283
Front Microbiol. 2012 Dec 19;3:417
pubmed: 23267351
Appl Environ Microbiol. 2012 Sep;78(17):6309-20
pubmed: 22773627
BMC Bioinformatics. 2012 Feb 14;13:31
pubmed: 22333067
Microbiol Mol Biol Rev. 2013 Sep;77(3):342-56
pubmed: 24006468
mSystems. 2019 May 28;4(3):
pubmed: 31138723
Nat Microbiol. 2016 Dec 19;2:16242
pubmed: 27991881
mBio. 2018 Jun 19;9(3):
pubmed: 29921664
mBio. 2020 Jan 21;11(1):
pubmed: 31964728
mBio. 2019 Dec 17;10(6):
pubmed: 31848272
Nucleic Acids Res. 2014 Jan;42(Database issue):D633-42
pubmed: 24288368
mSystems. 2018 Oct 2;3(5):
pubmed: 30320215
Proc Natl Acad Sci U S A. 2018 May 1;115(18):E4284-E4293
pubmed: 29666229
Bio Protoc. 2018 Jun 20;8(12):e2884
pubmed: 34285994
Proc Natl Acad Sci U S A. 2021 Aug 10;118(32):
pubmed: 34349022
Nat Commun. 2018 Nov 19;9(1):4881
pubmed: 30451857
Nat Methods. 2015 Jan;12(1):59-60
pubmed: 25402007
Nat Biotechnol. 2021 Jun;39(6):727-736
pubmed: 33462508
Cell Syst. 2016 Jun 22;2(6):412-21
pubmed: 27237738
FEMS Microbiol Rev. 2017 Sep 1;41(5):599-623
pubmed: 28961933
Trends Microbiol. 2018 Aug;26(8):649-662
pubmed: 29306554
Science. 2015 Nov 6;350(6261):aac9323
pubmed: 26542581
Philos Trans R Soc Lond B Biol Sci. 2020 May 11;375(1798):20190243
pubmed: 32200741
FEMS Microbiol Rev. 2014 Sep;38(5):916-31
pubmed: 24617569
Nature. 2018 Aug;560(7716):49-54
pubmed: 30013118
ISME J. 2021 Jul;15(7):1956-1970
pubmed: 33612831
BMC Bioinformatics. 2010 Mar 08;11:119
pubmed: 20211023
Microbiome. 2020 Feb 11;8(1):17
pubmed: 32046783
Science. 2009 Aug 14;325(5942):833
pubmed: 19679806
Bioinformatics. 2009 Aug 15;25(16):2078-9
pubmed: 19505943
Nat Methods. 2010 May;7(5):335-6
pubmed: 20383131
Ecology. 2009 Dec;90(12):3566-74
pubmed: 20120823
mBio. 2021 Dec 21;12(6):e0259521
pubmed: 34724822
ISME J. 2020 Jul;14(7):1834-1846
pubmed: 32327732
Proc Natl Acad Sci U S A. 2022 Nov 8;119(45):e2209132119
pubmed: 36322723
Proc Natl Acad Sci U S A. 2020 Mar 31;117(13):7355-7362
pubmed: 32179689
Bioinformatics. 2004 Jan 22;20(2):289-90
pubmed: 14734327
Annu Rev Virol. 2017 Sep 29;4(1):201-219
pubmed: 28961409
Microbiome. 2021 Oct 18;9(1):208
pubmed: 34663463
ISME J. 2013 Nov;7(11):2229-41
pubmed: 23823489
mSystems. 2021 Aug 31;6(4):e0120520
pubmed: 34402646
Sci Total Environ. 2016 Apr 1;548-549:100-109
pubmed: 26802338
ISME J. 2016 Jan;10(1):109-18
pubmed: 26046258
Nat Biotechnol. 2019 Jun;37(6):632-639
pubmed: 31061483
BMC Biol. 2014 Nov 12;12:87
pubmed: 25387460