Ecology of Endozoicomonadaceae in three coral genera across the Pacific Ocean.
Journal
Nature communications
ISSN: 2041-1723
Titre abrégé: Nat Commun
Pays: England
ID NLM: 101528555
Informations de publication
Date de publication:
01 06 2023
01 06 2023
Historique:
received:
18
10
2022
accepted:
26
04
2023
medline:
5
6
2023
pubmed:
2
6
2023
entrez:
1
6
2023
Statut:
epublish
Résumé
Health and resilience of the coral holobiont depend on diverse bacterial communities often dominated by key marine symbionts of the Endozoicomonadaceae family. The factors controlling their distribution and their functional diversity remain, however, poorly known. Here, we study the ecology of Endozoicomonadaceae at an ocean basin-scale by sampling specimens from three coral genera (Pocillopora, Porites, Millepora) on 99 reefs from 32 islands across the Pacific Ocean. The analysis of 2447 metabarcoding and 270 metagenomic samples reveals that each coral genus harbored a distinct new species of Endozoicomonadaceae. These species are composed of nine lineages that have distinct biogeographic patterns. The most common one, found in Pocillopora, appears to be a globally distributed symbiont with distinct metabolic capabilities, including the synthesis of amino acids and vitamins not produced by the host. The other lineages are structured partly by the host genetic lineage in Pocillopora and mainly by the geographic location in Porites. Millepora is more rarely associated to Endozoicomonadaceae. Our results show that different coral genera exhibit distinct strategies of host-Endozoicomonadaceae associations that are defined at the bacteria lineage level.
Identifiants
pubmed: 37264015
doi: 10.1038/s41467-023-38502-9
pii: 10.1038/s41467-023-38502-9
pmc: PMC10235432
doi:
Types de publication
Journal Article
Research Support, Non-U.S. Gov't
Langues
eng
Sous-ensembles de citation
IM
Pagination
3037Informations de copyright
© 2023. The Author(s).
Références
Int J Syst Evol Microbiol. 2014 Jul;64(Pt 7):2312-2318
pubmed: 24733175
PLoS One. 2013 Apr 22;8(4):e62091
pubmed: 23630625
PLoS Biol. 2019 Sep 23;17(9):e3000483
pubmed: 31545807
Appl Environ Microbiol. 2012 Oct;78(20):7467-75
pubmed: 22904048
Genome Res. 2015 Jul;25(7):1043-55
pubmed: 25977477
iScience. 2020 Apr 24;23(4):100972
pubmed: 32208346
J Biol Chem. 1985 Oct 15;260(23):12464-73
pubmed: 2995377
ISME J. 2021 Jun;15(6):1641-1654
pubmed: 33469166
Appl Environ Microbiol. 2021 Feb 26;87(6):
pubmed: 33419736
Environ Microbiol. 2016 May;18(5):1403-14
pubmed: 26271760
Curr Biol. 2018 Aug 20;28(16):2570-2580.e6
pubmed: 30100341
Bioinformatics. 2009 Jul 15;25(14):1754-60
pubmed: 19451168
Nat Commun. 2018 Nov 22;9(1):4921
pubmed: 30467310
Mol Ecol. 2015 Jul;24(13):3501-11
pubmed: 26018191
Proc Natl Acad Sci U S A. 2010 Nov 30;107(48):20756-61
pubmed: 21068377
PeerJ. 2019 Jul 26;7:e7359
pubmed: 31388474
Nucleic Acids Res. 2014 Jan;42(Database issue):D459-71
pubmed: 24225315
J Agric Food Chem. 2000 Apr;48(4):1150-4
pubmed: 10775364
ISME J. 2022 Aug;16(8):1883-1895
pubmed: 35444262
Nat Commun. 2021 Nov 4;12(1):6402
pubmed: 34737272
ISME J. 2009 May;3(5):512-21
pubmed: 19129866
Nat Microbiol. 2022 Oct;7(10):1702-1708
pubmed: 36123442
PeerJ. 2014 Jun 17;2:e419
pubmed: 25024903
Nat Commun. 2018 Nov 30;9(1):5114
pubmed: 30504855
ISME J. 2017 Jan;11(1):186-200
pubmed: 27392086
PLoS One. 2017 Aug 31;12(8):e0183663
pubmed: 28859111
Microb Ecol. 2020 Apr;79(3):706-719
pubmed: 31435691
Sci Data. 2023 Jun 1;10(1):324
pubmed: 37264023
Nat Microbiol. 2019 Dec;4(12):2090-2100
pubmed: 31548681
Nat Methods. 2013 Sep;10(9):881-4
pubmed: 23892899
Nat Commun. 2019 Mar 4;10(1):1014
pubmed: 30833550
ISME J. 2009 Jun;3(6):685-99
pubmed: 19242535
Nat Methods. 2016 Jul;13(7):581-3
pubmed: 27214047
Nat Biotechnol. 2018 Nov;36(10):996-1004
pubmed: 30148503
Int J Syst Evol Microbiol. 2018 Jun;68(6):2006-2014
pubmed: 29688166
Bioinformatics. 2013 Oct 1;29(19):2487-9
pubmed: 23842809
ISME J. 2020 May;14(5):1290-1303
pubmed: 32055028
Nucleic Acids Res. 2001 Jan 1;29(1):37-40
pubmed: 11125043
mSystems. 2021 Jun 29;6(3):e0124920
pubmed: 34156291
Bioinformatics. 2014 May 1;30(9):1312-3
pubmed: 24451623
Front Microbiol. 2016 Mar 08;7:251
pubmed: 27014194
Microbiome. 2018 Aug 9;6(1):140
pubmed: 30092815
Microbiology (Reading). 2019 May;165(5):503-515
pubmed: 30893029
Nat Commun. 2019 Jul 12;10(1):3092
pubmed: 31300639
Antonie Van Leeuwenhoek. 2016 Mar;109(3):431-8
pubmed: 26786501
PLoS One. 2013 Dec 31;8(12):e83746
pubmed: 24391819
Nucleic Acids Res. 2016 Jan 4;44(D1):D7-19
pubmed: 26615191
PLoS One. 2014 Jun 17;9(6):e100316
pubmed: 24937478
ISME J. 2017 Dec;11(12):2864-2868
pubmed: 28742071
GigaByte. 2021 Mar 08;2021:gigabyte15
pubmed: 36824332
Appl Environ Microbiol. 2012 Sep;78(18):6438-49
pubmed: 22773636
Ecol Evol. 2018 Jan 25;8(4):2240-2252
pubmed: 29468040
Nat Methods. 2013 Dec;10(12):1196-9
pubmed: 24141494
Int J Syst Evol Microbiol. 2013 Feb;63(Pt 2):709-714
pubmed: 22544802
Trends Microbiol. 2020 May;28(5):340-348
pubmed: 32298612
Front Cell Infect Microbiol. 2015 Jan 07;4:176
pubmed: 25621279
Syst Appl Microbiol. 2018 Mar;41(2):73-84
pubmed: 29398077
Nat Methods. 2021 Apr;18(4):366-368
pubmed: 33828273
Nat Biotechnol. 2019 May;37(5):540-546
pubmed: 30936562
J Pers Soc Psychol. 1997 Feb;72(2):346-61
pubmed: 9107005
Bioinformatics. 2021 Dec 22;38(1):270-272
pubmed: 34260698
Nucleic Acids Res. 2021 Jul 2;49(W1):W293-W296
pubmed: 33885785
Nature. 2022 Jul;607(7917):111-118
pubmed: 35732736
Microb Ecol. 2012 Apr;63(3):605-18
pubmed: 21984347
ISME J. 2021 Dec;15(12):3668-3682
pubmed: 34168314
Genome Res. 2017 May;27(5):824-834
pubmed: 28298430
Syst Appl Microbiol. 2016 Jul;39(5):313-8
pubmed: 27344411
Nature. 2017 Mar 15;543(7645):373-377
pubmed: 28300113
Appl Microbiol Biotechnol. 2016 Oct;100(19):8315-24
pubmed: 27557714
Nat Commun. 2017 Feb 10;8:14213
pubmed: 28186132
Microbiome. 2018 Feb 20;6(1):39
pubmed: 29463295
ISME J. 2013 Jul;7(7):1452-8
pubmed: 23303372
Cancer Res. 1967 Feb;27(2):209-20
pubmed: 6018555
mSystems. 2020 Jan 14;5(1):
pubmed: 31937678
Nat Methods. 2020 Feb;17(2):155-158
pubmed: 31819265
Nat Ecol Evol. 2021 Sep;5(9):1266-1272
pubmed: 34211141
Genome Biol. 2023 Jun 1;24(1):123
pubmed: 37264421
Nucleic Acids Res. 2021 Jan 8;49(D1):D412-D419
pubmed: 33125078
Annu Rev Microbiol. 2016 Sep 8;70:317-40
pubmed: 27482741
Microbiome. 2022 Sep 22;10(1):151
pubmed: 36138466
ISME J. 2008 Apr;2(4):350-63
pubmed: 18059490
ISME J. 2017 Oct;11(10):2167-2174
pubmed: 28509908
Nat Commun. 2023 Jun 1;14(1):3039
pubmed: 37264002
Appl Environ Microbiol. 2013 Aug;79(15):4759-62
pubmed: 23709513
Sci Rep. 2019 May 2;9(1):6834
pubmed: 31048787
Nat Rev Microbiol. 2019 Sep;17(9):557-567
pubmed: 31263246
Nat Rev Microbiol. 2019 Jul;17(7):429-440
pubmed: 30988511
Proc Natl Acad Sci U S A. 2018 Sep 4;115(36):E8528-E8537
pubmed: 30127013
Mol Ecol. 2013 Aug;22(16):4349-4362
pubmed: 23865748
Mar Pollut Bull. 2016 Apr 30;105(2):629-40
pubmed: 26763316
Int J Syst Evol Microbiol. 2010 Apr;60(Pt 4):938-943
pubmed: 19661507
BMC Bioinformatics. 2010 Mar 08;11:119
pubmed: 20211023
J Phycol. 2015 Dec;51(6):1127-36
pubmed: 26987007
Glob Chang Biol. 2015 Jul;21(7):2479-2487
pubmed: 25611594
Nucleic Acids Res. 2000 Jan 1;28(1):27-30
pubmed: 10592173
Front Microbiol. 2020 Jul 31;11:1791
pubmed: 32849407
Sci Data. 2023 Jun 1;10(1):326
pubmed: 37264047
Nature. 2022 May;605(7908):132-138
pubmed: 35444277
Mol Ecol Resour. 2019 Jul;19(4):1063-1080
pubmed: 30740899
Bioinformatics. 2019 Nov 15;:
pubmed: 31730192
J Exp Biol. 2012 Nov 15;215(Pt 22):3875-80
pubmed: 22972880
Syst Appl Microbiol. 2007 Apr;30(3):202-6
pubmed: 16904280
ISME J. 2015 Mar 17;9(4):894-908
pubmed: 25325380
Microorganisms. 2021 Sep 03;9(9):
pubmed: 34576770
PeerJ. 2015 Oct 08;3:e1319
pubmed: 26500826
Sci Rep. 2017 Jan 17;7:40579
pubmed: 28094347
Nature. 2005 Nov 3;438(7064):90-3
pubmed: 16267554
Nucleic Acids Res. 2004 Mar 19;32(5):1792-7
pubmed: 15034147
Microbiol Rev. 1995 Mar;59(1):143-69
pubmed: 7535888
Mol Biol Evol. 2017 Aug 1;34(8):2115-2122
pubmed: 28460117
BMC Bioinformatics. 2016 Nov 25;17(1):483
pubmed: 27884101
Sci Rep. 2016 Jan 13;6:19324
pubmed: 26758800
Nucleic Acids Res. 2014 Jan;42(Database issue):D490-5
pubmed: 24270786
Nucleic Acids Res. 2019 Jan 8;47(D1):D309-D314
pubmed: 30418610
Environ Microbiol. 2005 Aug;7(8):1162-74
pubmed: 16011753