Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution.

David R Nelson; Khaled M Hazzouri; Kyle J Lauersen; Ashish Jaiswal; Amphun Chaiboonchoe; Alexandra Mystikou; Weiqi Fu; Sarah Daakour; Bushra Dohai; Amnah Alzahmi; David Nobles; Mark Hurd; Julie Sexton; Michael J Preston; Joan Blanchette; Michael W Lomas; Khaled M A Amiri; Kourosh Salehi-Ashtiani

doi:10.1016/j.chom.2020.12.005

Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution.

David R Nelson, Khaled M Hazzouri, Kyle J Lauersen, Ashish Jaiswal, Amphun Chaiboonchoe, Alexandra Mystikou, Weiqi Fu, Sarah Daakour, Bushra Dohai, Amnah Alzahmi, David Nobles, Mark Hurd, Julie Sexton, Michael J Preston, Joan Blanchette, Michael W Lomas, Khaled M A Amiri, Kourosh Salehi-Ashtiani

King Abdullah University of Science and Technology

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

40 Scopus citations

Abstract

Being integral primary producers in diverse ecosystems, microalgal genomes could be mined for ecological insights, but representative genome sequences are lacking for many phyla. We cultured and sequenced 107 microalgae species from 11 different phyla indigenous to varied geographies and climates. This collection was used to resolve genomic differences between saltwater and freshwater microalgae. Freshwater species showed domain-centric ontology enrichment for nuclear and nuclear membrane functions, while saltwater species were enriched in organellar and cellular membrane functions. Further, marine species contained significantly more viral families in their genomes (p = 8e-4). Sequences from Chlorovirus, Coccolithovirus, Pandoravirus, Marseillevirus, Tupanvirus, and other viruses were found integrated into the genomes of algal from marine environments. These viral-origin sequences were found to be expressed and code for a wide variety of functions. Together, this study comprehensively defines the expanse of protein-coding and viral elements in microalgal genomes and posits a unified adaptive strategy for algal halotolerance.

Original language	English (US)
Journal	Cell Host & Microbe
DOIs	https://doi.org/10.1016/j.chom.2020.12.005
State	Published - Jan 12 2021

Bibliographical note

KAUST Repository Item: Exported on 2021-01-21
Acknowledgements: We thank the NYUAD High-Performance Computing Center for providing computational resources. This work was supported by Tamkeen under the NYU Abu Dhabi Research Institute grant to the NYUAD Center for Genomics and Systems Biology (73 71210 CGSB9), and by NYUAD Faculty Research Funds (AD060).

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Nelson, D. R., Hazzouri, K. M., Lauersen, K. J., Jaiswal, A., Chaiboonchoe, A., Mystikou, A., Fu, W., Daakour, S., Dohai, B., Alzahmi, A., Nobles, D., Hurd, M., Sexton, J., Preston, M. J., Blanchette, J., Lomas, M. W., Amiri, K. M. A., & Salehi-Ashtiani, K. (2021). Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution. Cell Host & Microbe. https://doi.org/10.1016/j.chom.2020.12.005

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title = "Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution.",

abstract = "Being integral primary producers in diverse ecosystems, microalgal genomes could be mined for ecological insights, but representative genome sequences are lacking for many phyla. We cultured and sequenced 107 microalgae species from 11 different phyla indigenous to varied geographies and climates. This collection was used to resolve genomic differences between saltwater and freshwater microalgae. Freshwater species showed domain-centric ontology enrichment for nuclear and nuclear membrane functions, while saltwater species were enriched in organellar and cellular membrane functions. Further, marine species contained significantly more viral families in their genomes (p = 8e-4). Sequences from Chlorovirus, Coccolithovirus, Pandoravirus, Marseillevirus, Tupanvirus, and other viruses were found integrated into the genomes of algal from marine environments. These viral-origin sequences were found to be expressed and code for a wide variety of functions. Together, this study comprehensively defines the expanse of protein-coding and viral elements in microalgal genomes and posits a unified adaptive strategy for algal halotolerance.",

author = "Nelson, {David R} and Hazzouri, {Khaled M} and Lauersen, {Kyle J} and Ashish Jaiswal and Amphun Chaiboonchoe and Alexandra Mystikou and Weiqi Fu and Sarah Daakour and Bushra Dohai and Amnah Alzahmi and David Nobles and Mark Hurd and Julie Sexton and Preston, {Michael J} and Joan Blanchette and Lomas, {Michael W} and Amiri, {Khaled M A} and Kourosh Salehi-Ashtiani",

note = "KAUST Repository Item: Exported on 2021-01-21 Acknowledgements: We thank the NYUAD High-Performance Computing Center for providing computational resources. This work was supported by Tamkeen under the NYU Abu Dhabi Research Institute grant to the NYUAD Center for Genomics and Systems Biology (73 71210 CGSB9), and by NYUAD Faculty Research Funds (AD060).",

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Nelson, DR, Hazzouri, KM, Lauersen, KJ, Jaiswal, A, Chaiboonchoe, A, Mystikou, A, Fu, W, Daakour, S, Dohai, B, Alzahmi, A, Nobles, D, Hurd, M, Sexton, J, Preston, MJ, Blanchette, J, Lomas, MW, Amiri, KMA & Salehi-Ashtiani, K 2021, 'Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution.', Cell Host & Microbe. https://doi.org/10.1016/j.chom.2020.12.005

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T1 - Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution.

AU - Nelson, David R

AU - Hazzouri, Khaled M

AU - Lauersen, Kyle J

AU - Jaiswal, Ashish

AU - Chaiboonchoe, Amphun

AU - Mystikou, Alexandra

AU - Fu, Weiqi

AU - Daakour, Sarah

AU - Dohai, Bushra

AU - Alzahmi, Amnah

AU - Nobles, David

AU - Hurd, Mark

AU - Sexton, Julie

AU - Preston, Michael J

AU - Blanchette, Joan

AU - Lomas, Michael W

AU - Amiri, Khaled M A

AU - Salehi-Ashtiani, Kourosh

N1 - KAUST Repository Item: Exported on 2021-01-21 Acknowledgements: We thank the NYUAD High-Performance Computing Center for providing computational resources. This work was supported by Tamkeen under the NYU Abu Dhabi Research Institute grant to the NYUAD Center for Genomics and Systems Biology (73 71210 CGSB9), and by NYUAD Faculty Research Funds (AD060).

PY - 2021/1/12

Y1 - 2021/1/12

N2 - Being integral primary producers in diverse ecosystems, microalgal genomes could be mined for ecological insights, but representative genome sequences are lacking for many phyla. We cultured and sequenced 107 microalgae species from 11 different phyla indigenous to varied geographies and climates. This collection was used to resolve genomic differences between saltwater and freshwater microalgae. Freshwater species showed domain-centric ontology enrichment for nuclear and nuclear membrane functions, while saltwater species were enriched in organellar and cellular membrane functions. Further, marine species contained significantly more viral families in their genomes (p = 8e-4). Sequences from Chlorovirus, Coccolithovirus, Pandoravirus, Marseillevirus, Tupanvirus, and other viruses were found integrated into the genomes of algal from marine environments. These viral-origin sequences were found to be expressed and code for a wide variety of functions. Together, this study comprehensively defines the expanse of protein-coding and viral elements in microalgal genomes and posits a unified adaptive strategy for algal halotolerance.

AB - Being integral primary producers in diverse ecosystems, microalgal genomes could be mined for ecological insights, but representative genome sequences are lacking for many phyla. We cultured and sequenced 107 microalgae species from 11 different phyla indigenous to varied geographies and climates. This collection was used to resolve genomic differences between saltwater and freshwater microalgae. Freshwater species showed domain-centric ontology enrichment for nuclear and nuclear membrane functions, while saltwater species were enriched in organellar and cellular membrane functions. Further, marine species contained significantly more viral families in their genomes (p = 8e-4). Sequences from Chlorovirus, Coccolithovirus, Pandoravirus, Marseillevirus, Tupanvirus, and other viruses were found integrated into the genomes of algal from marine environments. These viral-origin sequences were found to be expressed and code for a wide variety of functions. Together, this study comprehensively defines the expanse of protein-coding and viral elements in microalgal genomes and posits a unified adaptive strategy for algal halotolerance.

UR - http://hdl.handle.net/10754/666949

UR - https://linkinghub.elsevier.com/retrieve/pii/S1931312820306673

U2 - 10.1016/j.chom.2020.12.005

DO - 10.1016/j.chom.2020.12.005

M3 - Article

C2 - 33434515

SN - 1931-3128

JO - Cell Host & Microbe

JF - Cell Host & Microbe

ER -

Large-scale genome sequencing reveals the driving forces of viruses in microalgal evolution.

Abstract

Bibliographical note

UN SDGs

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