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Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors

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Standard Standard

Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. / Kelly, L.W.; Williams, G.J.; Barott, K.L. et al.
In: Proceedings of the National Academy of Sciences of the United States of America, Vol. 111, No. 28, 30.06.2014, p. 10227-10232.

Research output: Contribution to journal › Article › peer-review

HarvardHarvard

Kelly, LW, Williams, GJ, Barott, KL, Carlson, CA, Dinsdale, EA, Edwards, RA, Haas, AF, Haynes, M, Lim, YW, McDole, T, Nelson, CE, Sala, E, Sandin, SA, Smith, JE, Vermeij, MJ, Youle, M & Rohwer, F 2014, 'Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors', Proceedings of the National Academy of Sciences of the United States of America, vol. 111, no. 28, pp. 10227-10232. https://doi.org/10.1073/pnas.1403319111

APA

Kelly, L. W., Williams, G. J., Barott, K. L., Carlson, C. A., Dinsdale, E. A., Edwards, R. A., Haas, A. F., Haynes, M., Lim, Y. W., McDole, T., Nelson, C. E., Sala, E., Sandin, S. A., Smith, J. E., Vermeij, M. J., Youle, M., & Rohwer, F. (2014). Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences of the United States of America, 111(28), 10227-10232. https://doi.org/10.1073/pnas.1403319111

CBE

Kelly LW, Williams GJ, Barott KL, Carlson CA, Dinsdale EA, Edwards RA, Haas AF, Haynes M, Lim YW, McDole T, et al. 2014. Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences of the United States of America. 111(28):10227-10232. https://doi.org/10.1073/pnas.1403319111

MLA

Kelly, L.W. et al. "Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors". Proceedings of the National Academy of Sciences of the United States of America. 2014, 111(28). 10227-10232. https://doi.org/10.1073/pnas.1403319111

VancouverVancouver

Kelly LW, Williams GJ, Barott KL, Carlson CA, Dinsdale EA, Edwards RA et al. Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. Proceedings of the National Academy of Sciences of the United States of America. 2014 Jun 30;111(28):10227-10232. doi: 10.1073/pnas.1403319111

Author

Kelly, L.W. ; Williams, G.J. ; Barott, K.L. et al. / Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors. In: Proceedings of the National Academy of Sciences of the United States of America. 2014 ; Vol. 111, No. 28. pp. 10227-10232.

RIS

TY - JOUR

T1 - Local genomic adaptation of coral reef-associated microbiomes to gradients of natural variability and anthropogenic stressors

AU - Kelly, L.W.

AU - Williams, G.J.

AU - Barott, K.L.

AU - Carlson, C.A.

AU - Dinsdale, E.A.

AU - Edwards, R.A.

AU - Haas, A.F.

AU - Haynes, M.

AU - Lim, Y.W.

AU - McDole, T.

AU - Nelson, C.E.

AU - Sala, E.

AU - Sandin, S.A.

AU - Smith, J.E.

AU - Vermeij, M.J.

AU - Youle, M.

AU - Rohwer, F.

PY - 2014/6/30

Y1 - 2014/6/30

N2 - Holobionts are species-specific associations between macro- and microorganisms. On coral reefs, the benthic coverage of coral and algal holobionts varies due to natural and anthropogenic forcings. Different benthic macroorganisms are predicted to have specific microbiomes. In contrast, local environmental factors are predicted to select for specific metabolic pathways in microbes. To reconcile these two predictions, we hypothesized that adaptation of microbiomes to local conditions is facilitated by the horizontal transfer of genes responsible for specific metabolic capabilities. To test this hypothesis, microbial metagenomes were sequenced from 22 coral reefs at 11 Line Islands in the central Pacific that together span a wide range of biogeochemical and anthropogenic influences. Consistent with our hypothesis, the percent cover of major benthic functional groups significantly correlated with particular microbial taxa. Reefs with higher coral cover had a coral microbiome with higher abundances of Alphaproteobacteria (such as Rhodobacterales and Sphingomonadales), whereas microbiomes of algae-dominated reefs had higher abundances of Gammaproteobacteria (such as Alteromonadales, Pseudomonadales, and Vibrionales), Betaproteobacteria, and Bacteriodetes. In contrast to taxa, geography was the strongest predictor of microbial community metabolism. Microbial communities on reefs with higher nutrient availability (e.g., equatorial upwelling zones) were enriched in genes involved in nutrient-related metabolisms (e.g., nitrate and nitrite ammonification, Ton/Tol transport, etc.). On reefs further from the equator, microbes had more genes encoding chlorophyll biosynthesis and photosystems I/II. These results support the hypothesis that core microbiomes are determined by holobiont macroorganisms, and that those core taxa adapt to local conditions by selecting for advantageous metabolic genes

AB - Holobionts are species-specific associations between macro- and microorganisms. On coral reefs, the benthic coverage of coral and algal holobionts varies due to natural and anthropogenic forcings. Different benthic macroorganisms are predicted to have specific microbiomes. In contrast, local environmental factors are predicted to select for specific metabolic pathways in microbes. To reconcile these two predictions, we hypothesized that adaptation of microbiomes to local conditions is facilitated by the horizontal transfer of genes responsible for specific metabolic capabilities. To test this hypothesis, microbial metagenomes were sequenced from 22 coral reefs at 11 Line Islands in the central Pacific that together span a wide range of biogeochemical and anthropogenic influences. Consistent with our hypothesis, the percent cover of major benthic functional groups significantly correlated with particular microbial taxa. Reefs with higher coral cover had a coral microbiome with higher abundances of Alphaproteobacteria (such as Rhodobacterales and Sphingomonadales), whereas microbiomes of algae-dominated reefs had higher abundances of Gammaproteobacteria (such as Alteromonadales, Pseudomonadales, and Vibrionales), Betaproteobacteria, and Bacteriodetes. In contrast to taxa, geography was the strongest predictor of microbial community metabolism. Microbial communities on reefs with higher nutrient availability (e.g., equatorial upwelling zones) were enriched in genes involved in nutrient-related metabolisms (e.g., nitrate and nitrite ammonification, Ton/Tol transport, etc.). On reefs further from the equator, microbes had more genes encoding chlorophyll biosynthesis and photosystems I/II. These results support the hypothesis that core microbiomes are determined by holobiont macroorganisms, and that those core taxa adapt to local conditions by selecting for advantageous metabolic genes

UR - http://www.pnas.org/lookup/suppl/doi:10.1073/pnas.1403319111/-/DCSupplemental

U2 - 10.1073/pnas.1403319111

DO - 10.1073/pnas.1403319111

M3 - Article

VL - 111

SP - 10227

EP - 10232

JO - Proceedings of the National Academy of Sciences of the United States of America

JF - Proceedings of the National Academy of Sciences of the United States of America

SN - 1091-6490

IS - 28

ER -