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Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria

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Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria. / Bombar, Deniz; Heller, Philip; Sanchez-Baracaldo, Patricia; Carter, Brandon J; Zehr, Jonathan P.

I: The ISME Journal, Bind 8, Nr. 12, 12.2014, s. 2530-42.

Publikation: Bidrag til tidsskriftTidsskriftartikelForskningfagfællebedømt

Harvard

Bombar, D, Heller, P, Sanchez-Baracaldo, P, Carter, BJ & Zehr, JP 2014, 'Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria', The ISME Journal, bind 8, nr. 12, s. 2530-42. https://doi.org/10.1038/ismej.2014.167

APA

Bombar, D., Heller, P., Sanchez-Baracaldo, P., Carter, B. J., & Zehr, J. P. (2014). Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria. The ISME Journal, 8(12), 2530-42. https://doi.org/10.1038/ismej.2014.167

Vancouver

Bombar D, Heller P, Sanchez-Baracaldo P, Carter BJ, Zehr JP. Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria. The ISME Journal. 2014 dec;8(12):2530-42. https://doi.org/10.1038/ismej.2014.167

Author

Bombar, Deniz ; Heller, Philip ; Sanchez-Baracaldo, Patricia ; Carter, Brandon J ; Zehr, Jonathan P. / Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria. I: The ISME Journal. 2014 ; Bind 8, Nr. 12. s. 2530-42.

Bibtex

@article{70250a49c6e940cfa06405421067d455,
title = "Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria",
abstract = "Marine planktonic cyanobacteria capable of fixing molecular nitrogen (termed 'diazotrophs') are key in biogeochemical cycling, and the nitrogen fixed is one of the major external sources of nitrogen to the open ocean. Candidatus Atelocyanobacterium thalassa (UCYN-A) is a diazotrophic cyanobacterium known for its widespread geographic distribution in tropical and subtropical oligotrophic oceans, unusually reduced genome and symbiosis with a single-celled prymnesiophyte alga. Recently a novel strain of this organism was also detected in coastal waters sampled from the Scripps Institute of Oceanography pier. We analyzed the metagenome of this UCYN-A2 population by concentrating cells by flow cytometry. Phylogenomic analysis provided strong bootstrap support for the monophyly of UCYN-A (here called UCYN-A1) and UCYN-A2 within the marine Crocosphaera sp. and Cyanothece sp. clade. UCYN-A2 shares 1159 of the 1200 UCYN-A1 protein-coding genes (96.6%) with high synteny, yet the average amino-acid sequence identity between these orthologs is only 86%. UCYN-A2 lacks the same major pathways and proteins that are absent in UCYN-A1, suggesting that both strains can be grouped at the same functional and ecological level. Our results suggest that UCYN-A1 and UCYN-A2 had a common ancestor and diverged after genome reduction. These two variants may reflect adaptation of the host to different niches, which could be coastal and open ocean habitats.",
keywords = "Bacterial Proteins, Cyanobacteria, Genome, Bacterial, Genomics, Nitrogen Fixation, Oceans and Seas, Phylogeny, Seawater, Comparative Study, Journal Article, Research Support, Non-U.S. Gov't",
author = "Deniz Bombar and Philip Heller and Patricia Sanchez-Baracaldo and Carter, {Brandon J} and Zehr, {Jonathan P}",
year = "2014",
month = dec,
doi = "10.1038/ismej.2014.167",
language = "English",
volume = "8",
pages = "2530--42",
journal = "I S M E Journal",
issn = "1751-7362",
publisher = "nature publishing group",
number = "12",

}

RIS

TY - JOUR

T1 - Comparative genomics reveals surprising divergence of two closely related strains of uncultivated UCYN-A cyanobacteria

AU - Bombar, Deniz

AU - Heller, Philip

AU - Sanchez-Baracaldo, Patricia

AU - Carter, Brandon J

AU - Zehr, Jonathan P

PY - 2014/12

Y1 - 2014/12

N2 - Marine planktonic cyanobacteria capable of fixing molecular nitrogen (termed 'diazotrophs') are key in biogeochemical cycling, and the nitrogen fixed is one of the major external sources of nitrogen to the open ocean. Candidatus Atelocyanobacterium thalassa (UCYN-A) is a diazotrophic cyanobacterium known for its widespread geographic distribution in tropical and subtropical oligotrophic oceans, unusually reduced genome and symbiosis with a single-celled prymnesiophyte alga. Recently a novel strain of this organism was also detected in coastal waters sampled from the Scripps Institute of Oceanography pier. We analyzed the metagenome of this UCYN-A2 population by concentrating cells by flow cytometry. Phylogenomic analysis provided strong bootstrap support for the monophyly of UCYN-A (here called UCYN-A1) and UCYN-A2 within the marine Crocosphaera sp. and Cyanothece sp. clade. UCYN-A2 shares 1159 of the 1200 UCYN-A1 protein-coding genes (96.6%) with high synteny, yet the average amino-acid sequence identity between these orthologs is only 86%. UCYN-A2 lacks the same major pathways and proteins that are absent in UCYN-A1, suggesting that both strains can be grouped at the same functional and ecological level. Our results suggest that UCYN-A1 and UCYN-A2 had a common ancestor and diverged after genome reduction. These two variants may reflect adaptation of the host to different niches, which could be coastal and open ocean habitats.

AB - Marine planktonic cyanobacteria capable of fixing molecular nitrogen (termed 'diazotrophs') are key in biogeochemical cycling, and the nitrogen fixed is one of the major external sources of nitrogen to the open ocean. Candidatus Atelocyanobacterium thalassa (UCYN-A) is a diazotrophic cyanobacterium known for its widespread geographic distribution in tropical and subtropical oligotrophic oceans, unusually reduced genome and symbiosis with a single-celled prymnesiophyte alga. Recently a novel strain of this organism was also detected in coastal waters sampled from the Scripps Institute of Oceanography pier. We analyzed the metagenome of this UCYN-A2 population by concentrating cells by flow cytometry. Phylogenomic analysis provided strong bootstrap support for the monophyly of UCYN-A (here called UCYN-A1) and UCYN-A2 within the marine Crocosphaera sp. and Cyanothece sp. clade. UCYN-A2 shares 1159 of the 1200 UCYN-A1 protein-coding genes (96.6%) with high synteny, yet the average amino-acid sequence identity between these orthologs is only 86%. UCYN-A2 lacks the same major pathways and proteins that are absent in UCYN-A1, suggesting that both strains can be grouped at the same functional and ecological level. Our results suggest that UCYN-A1 and UCYN-A2 had a common ancestor and diverged after genome reduction. These two variants may reflect adaptation of the host to different niches, which could be coastal and open ocean habitats.

KW - Bacterial Proteins

KW - Cyanobacteria

KW - Genome, Bacterial

KW - Genomics

KW - Nitrogen Fixation

KW - Oceans and Seas

KW - Phylogeny

KW - Seawater

KW - Comparative Study

KW - Journal Article

KW - Research Support, Non-U.S. Gov't

U2 - 10.1038/ismej.2014.167

DO - 10.1038/ismej.2014.167

M3 - Journal article

C2 - 25226029

VL - 8

SP - 2530

EP - 2542

JO - I S M E Journal

JF - I S M E Journal

SN - 1751-7362

IS - 12

ER -

ID: 171658078