Repeat-sequence turnover shifts fundamentally in species with large genomes
Given the 2,400-fold range of genome sizes (0.06–148.9 Gbp (gigabase pair)) of seed plants (angiosperms and gymnosperms) with a broadly similar gene content (amounting to approximately 0.03 Gbp), the repeat-sequence content of the genome might be expected to increase with genome size, resulting in t...
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| Veröffentlicht in: | Nature plants 2020-11, Vol.6 (11), p.1325-1329 |
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| creator | Novák, Petr Guignard, Maïté S. Neumann, Pavel Kelly, Laura J. Mlinarec, Jelena Koblížková, Andrea Dodsworth, Steven Kovařík, Aleš Pellicer, Jaume Wang, Wencai Macas, Jiří Leitch, Ilia J. Leitch, Andrew R. |
| description | Given the 2,400-fold range of genome sizes (0.06–148.9 Gbp (gigabase pair)) of seed plants (angiosperms and gymnosperms) with a broadly similar gene content (amounting to approximately 0.03 Gbp), the repeat-sequence content of the genome might be expected to increase with genome size, resulting in the largest genomes consisting almost entirely of repetitive sequences. Here we test this prediction, using the same bioinformatic approach for 101 species to ensure consistency in what constitutes a repeat. We reveal a fundamental change in repeat turnover in genomes above around 10 Gbp, such that species with the largest genomes are only about 55% repetitive. Given that genome size influences many plant traits, habits and life strategies, this fundamental shift in repeat dynamics is likely to affect the evolutionary trajectory of species lineages.
Genomic analyses of 101 plant species reveals a fundamental shift in the proportion of repetitive sequences in genomes above around 10 Gbp—species with the largest genomes are only about 55% repetitive, and this proportion does not increase further with genome size. |
| doi_str_mv | 10.1038/s41477-020-00785-x |
| format | Article |
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Genomic analyses of 101 plant species reveals a fundamental shift in the proportion of repetitive sequences in genomes above around 10 Gbp—species with the largest genomes are only about 55% repetitive, and this proportion does not increase further with genome size.</description><identifier>ISSN: 2055-0278</identifier><identifier>EISSN: 2055-0278</identifier><identifier>DOI: 10.1038/s41477-020-00785-x</identifier><identifier>PMID: 33077876</identifier><language>eng</language><publisher>London: Nature Publishing Group UK</publisher><subject>45/22 ; 45/23 ; 631/181 ; 631/208 ; 631/449 ; Angiosperms ; Biomedical and Life Sciences ; Brief Communication ; Cycadopsida - genetics ; Flow Cytometry ; Gene sequencing ; Genome, Plant - genetics ; Genomes ; Genomic analysis ; Gymnosperms ; Life Sciences ; Magnoliopsida - genetics ; Nucleotide sequence ; Phylogeny ; Plant Sciences ; Plant species ; Repetitive Sequences, Nucleic Acid - genetics ; Retroelements - genetics ; Species</subject><ispartof>Nature plants, 2020-11, Vol.6 (11), p.1325-1329</ispartof><rights>The Author(s), under exclusive licence to Springer Nature Limited 2020</rights><rights>The Author(s), under exclusive licence to Springer Nature Limited 2020.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c375t-7a5889569f790b68e030e6fae9d6bd57c85d9b71c04590ca37a3cef0f6c6def3</citedby><cites>FETCH-LOGICAL-c375t-7a5889569f790b68e030e6fae9d6bd57c85d9b71c04590ca37a3cef0f6c6def3</cites><orcidid>0000-0003-0829-1570 ; 0000-0002-3837-8186 ; 0000-0003-1159-939X ; 0000-0001-8574-302X ; 0000-0001-6711-6639 ; 0000-0002-5068-9681 ; 0000-0002-2627-5374 ; 0000-0001-7632-9775</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1038/s41477-020-00785-x$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1038/s41477-020-00785-x$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,776,780,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/33077876$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Novák, Petr</creatorcontrib><creatorcontrib>Guignard, Maïté S.</creatorcontrib><creatorcontrib>Neumann, Pavel</creatorcontrib><creatorcontrib>Kelly, Laura J.</creatorcontrib><creatorcontrib>Mlinarec, Jelena</creatorcontrib><creatorcontrib>Koblížková, Andrea</creatorcontrib><creatorcontrib>Dodsworth, Steven</creatorcontrib><creatorcontrib>Kovařík, Aleš</creatorcontrib><creatorcontrib>Pellicer, Jaume</creatorcontrib><creatorcontrib>Wang, Wencai</creatorcontrib><creatorcontrib>Macas, Jiří</creatorcontrib><creatorcontrib>Leitch, Ilia J.</creatorcontrib><creatorcontrib>Leitch, Andrew R.</creatorcontrib><title>Repeat-sequence turnover shifts fundamentally in species with large genomes</title><title>Nature plants</title><addtitle>Nat. Plants</addtitle><addtitle>Nat Plants</addtitle><description>Given the 2,400-fold range of genome sizes (0.06–148.9 Gbp (gigabase pair)) of seed plants (angiosperms and gymnosperms) with a broadly similar gene content (amounting to approximately 0.03 Gbp), the repeat-sequence content of the genome might be expected to increase with genome size, resulting in the largest genomes consisting almost entirely of repetitive sequences. Here we test this prediction, using the same bioinformatic approach for 101 species to ensure consistency in what constitutes a repeat. We reveal a fundamental change in repeat turnover in genomes above around 10 Gbp, such that species with the largest genomes are only about 55% repetitive. Given that genome size influences many plant traits, habits and life strategies, this fundamental shift in repeat dynamics is likely to affect the evolutionary trajectory of species lineages.
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Plants</stitle><addtitle>Nat Plants</addtitle><date>2020-11-01</date><risdate>2020</risdate><volume>6</volume><issue>11</issue><spage>1325</spage><epage>1329</epage><pages>1325-1329</pages><issn>2055-0278</issn><eissn>2055-0278</eissn><abstract>Given the 2,400-fold range of genome sizes (0.06–148.9 Gbp (gigabase pair)) of seed plants (angiosperms and gymnosperms) with a broadly similar gene content (amounting to approximately 0.03 Gbp), the repeat-sequence content of the genome might be expected to increase with genome size, resulting in the largest genomes consisting almost entirely of repetitive sequences. Here we test this prediction, using the same bioinformatic approach for 101 species to ensure consistency in what constitutes a repeat. We reveal a fundamental change in repeat turnover in genomes above around 10 Gbp, such that species with the largest genomes are only about 55% repetitive. Given that genome size influences many plant traits, habits and life strategies, this fundamental shift in repeat dynamics is likely to affect the evolutionary trajectory of species lineages.
Genomic analyses of 101 plant species reveals a fundamental shift in the proportion of repetitive sequences in genomes above around 10 Gbp—species with the largest genomes are only about 55% repetitive, and this proportion does not increase further with genome size.</abstract><cop>London</cop><pub>Nature Publishing Group UK</pub><pmid>33077876</pmid><doi>10.1038/s41477-020-00785-x</doi><tpages>5</tpages><orcidid>https://orcid.org/0000-0003-0829-1570</orcidid><orcidid>https://orcid.org/0000-0002-3837-8186</orcidid><orcidid>https://orcid.org/0000-0003-1159-939X</orcidid><orcidid>https://orcid.org/0000-0001-8574-302X</orcidid><orcidid>https://orcid.org/0000-0001-6711-6639</orcidid><orcidid>https://orcid.org/0000-0002-5068-9681</orcidid><orcidid>https://orcid.org/0000-0002-2627-5374</orcidid><orcidid>https://orcid.org/0000-0001-7632-9775</orcidid></addata></record> |
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| subjects | 45/22 45/23 631/181 631/208 631/449 Angiosperms Biomedical and Life Sciences Brief Communication Cycadopsida - genetics Flow Cytometry Gene sequencing Genome, Plant - genetics Genomes Genomic analysis Gymnosperms Life Sciences Magnoliopsida - genetics Nucleotide sequence Phylogeny Plant Sciences Plant species Repetitive Sequences, Nucleic Acid - genetics Retroelements - genetics Species |
| title | Repeat-sequence turnover shifts fundamentally in species with large genomes |
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