Single-cell genomics of a bloom-forming phytoplankton species reveals population genetic structure across continents
Gollnisch, Raphael LU ; Ahrén, Dag LU
and Rengefors, Karin
LU
(2024)
In The Isme Journal
18(1).
- Abstract
The study of microbial diversity over time and space is fundamental to the understanding of their ecology and evolution. The underlying processes driving these patterns are not fully resolved but can be studied using population genetic approaches. Here we investigated the population genetic structure of Gonyostomum semen, a bloom-forming phytoplankton species, across two continents. The species appears to be expanding in Europe, whereas similar trends are not observed in the USA. Our aim was to investigate if populations of Gonyostomum semen in Europe and in the USA are genetically differentiated, if there is population genetic structure within the continents, and what the potential drivers of differentiation are. To this end, we used a... (More)
The study of microbial diversity over time and space is fundamental to the understanding of their ecology and evolution. The underlying processes driving these patterns are not fully resolved but can be studied using population genetic approaches. Here we investigated the population genetic structure of Gonyostomum semen, a bloom-forming phytoplankton species, across two continents. The species appears to be expanding in Europe, whereas similar trends are not observed in the USA. Our aim was to investigate if populations of Gonyostomum semen in Europe and in the USA are genetically differentiated, if there is population genetic structure within the continents, and what the potential drivers of differentiation are. To this end, we used a novel method based on single-amplified genomes combined with Restriction-site Associated DNA sequencing that allows de novo genotyping of natural single-cell isolates without the need for culturing. We amplified over 900 single-cell genomes from 25 lake populations across Europe and the USA and identified two distinct population clusters, one in Europe and another in the USA. Low genetic diversity in European populations supports the hypothesized recent expansion of Gonyostomum semen on this continent. Geographic population structure within each continent was associated with differences in environmental variables that may have led to ecological divergence of population clusters. Overall, our results show that single-amplified genomes combined with Restriction-site Associated DNA sequencing can be used to analyze microalgal population structure and differentiation based on single-cell isolates from natural, uncultured samples.
(Less)
- author
- Gollnisch, Raphael
LU
; Ahrén, Dag
LU
and Rengefors, Karin
LU
- organization
- publishing date
- 2024-01-08
- type
- Contribution to journal
- publication status
- published
- subject
- keywords
- adaptation, dispersal, ecological divergence, Gonyostomum semen, restriction-site associated DNA (RAD) sequencing, single-cell whole-genome amplification (WGA)
- in
- The Isme Journal
- volume
- 18
- issue
- 1
- article number
- wrae045
- pages
- 13 pages
- publisher
- Nature Publishing Group
- external identifiers
-
- scopus:85192114412
- pmid:38489771
- ISSN
- 1751-7362
- DOI
- 10.1093/ismejo/wrae045
- language
- English
- LU publication?
- yes
- id
- 2cc43a19-faf3-4f52-a186-410988691397
- date added to LUP
- 2024-05-16 08:51:57
- date last changed
- 2024-06-27 13:05:18
@article{2cc43a19-faf3-4f52-a186-410988691397,
abstract = {{<p>The study of microbial diversity over time and space is fundamental to the understanding of their ecology and evolution. The underlying processes driving these patterns are not fully resolved but can be studied using population genetic approaches. Here we investigated the population genetic structure of Gonyostomum semen, a bloom-forming phytoplankton species, across two continents. The species appears to be expanding in Europe, whereas similar trends are not observed in the USA. Our aim was to investigate if populations of Gonyostomum semen in Europe and in the USA are genetically differentiated, if there is population genetic structure within the continents, and what the potential drivers of differentiation are. To this end, we used a novel method based on single-amplified genomes combined with Restriction-site Associated DNA sequencing that allows de novo genotyping of natural single-cell isolates without the need for culturing. We amplified over 900 single-cell genomes from 25 lake populations across Europe and the USA and identified two distinct population clusters, one in Europe and another in the USA. Low genetic diversity in European populations supports the hypothesized recent expansion of Gonyostomum semen on this continent. Geographic population structure within each continent was associated with differences in environmental variables that may have led to ecological divergence of population clusters. Overall, our results show that single-amplified genomes combined with Restriction-site Associated DNA sequencing can be used to analyze microalgal population structure and differentiation based on single-cell isolates from natural, uncultured samples.</p>}},
author = {{Gollnisch, Raphael and Ahrén, Dag and Rengefors, Karin}},
issn = {{1751-7362}},
keywords = {{adaptation; dispersal; ecological divergence; Gonyostomum semen; restriction-site associated DNA (RAD) sequencing; single-cell whole-genome amplification (WGA)}},
language = {{eng}},
month = {{01}},
number = {{1}},
publisher = {{Nature Publishing Group}},
series = {{The Isme Journal}},
title = {{Single-cell genomics of a bloom-forming phytoplankton species reveals population genetic structure across continents}},
url = {{http://dx.doi.org/10.1093/ismejo/wrae045}},
doi = {{10.1093/ismejo/wrae045}},
volume = {{18}},
year = {{2024}},
}