Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome
Several features already qualified the invasive bivalve species Crassostrea gigas as a valuable non-standard model organism in genome research. C. gigas is characterized by the low contribution of satellite DNAs (satDNAs) vs. mobile elements and has an extremely low amount of heterochromatin, predom...
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ftrboskovicinst:oai:fulir.irb.hr:6509 2023-05-15T15:57:59+02:00 Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome Tunjić-Cvitanić, Monika Pasantes, Juan J. García-Souto, Daniel Cvitanić, Tonči Plohl, Miroslav Šatović-Vukšić, Eva 2021 application/pdf http://fulir.irb.hr/6509/ http://fulir.irb.hr/6509/1/1136540.ijms-22-06798.pdf https://www.mdpi.com/1422-0067/22/13/6798 https://doi.org/10.3390/ijms22136798 hr hrv MDPI info:eu-repo/grantAgreement/HRZZ/IP/IP-2019-04-5522 http://fulir.irb.hr/6509/ https://www.mdpi.com/1422-0067/22/13/6798 doi:10.3390/ijms22136798 http://fulir.irb.hr/6509/1/1136540.ijms-22-06798.pdf info:eu-repo/semantics/openAccess International journal of molecular sciences Biology info:eu-repo/semantics/article 2021 ftrboskovicinst https://doi.org/10.3390/ijms22136798 2022-07-08T13:11:13Z Several features already qualified the invasive bivalve species Crassostrea gigas as a valuable non-standard model organism in genome research. C. gigas is characterized by the low contribution of satellite DNAs (satDNAs) vs. mobile elements and has an extremely low amount of heterochromatin, predominantly built of DNA transposons. In this work, we have identified 52 satDNAs composing the satellitome of C. gigas and constituting about 6.33% of the genome. Satellitome analysis reveals unusual, highly scattered organization of relatively short satDNA arrays across the whole genome. However, peculiar chromosomal distribution and densities are specific for each satDNA. The inspection of the organizational forms of the 11 most abundant satDNAs shows association with constitutive parts of Helitron mobile elements. Nine of the inspected satDNAs are dominantly found in mobile element-associated form, two mostly appear standalone, and only one is present exclusively as Helitron-associated sequence. The Helitron-related satDNAs appear in more chromosomes than other satDNAs, indicating that these mobile elements could be leading satDNA propagation in C. gigas. No significant accumulation of satDNAs on certain chromosomal positions was detected in C. gigas, thus establishing a novel pattern of satDNA organization on the genome level. Article in Journal/Newspaper Crassostrea gigas Pacific oyster Ruđer Bošković Institute Zagreb: Full-text Institutional Repository (FULIR) Pacific International Journal of Molecular Sciences 22 13 6798 |
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Ruđer Bošković Institute Zagreb: Full-text Institutional Repository (FULIR) |
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ftrboskovicinst |
language |
Croatian |
topic |
Biology |
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Biology Tunjić-Cvitanić, Monika Pasantes, Juan J. García-Souto, Daniel Cvitanić, Tonči Plohl, Miroslav Šatović-Vukšić, Eva Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome |
topic_facet |
Biology |
description |
Several features already qualified the invasive bivalve species Crassostrea gigas as a valuable non-standard model organism in genome research. C. gigas is characterized by the low contribution of satellite DNAs (satDNAs) vs. mobile elements and has an extremely low amount of heterochromatin, predominantly built of DNA transposons. In this work, we have identified 52 satDNAs composing the satellitome of C. gigas and constituting about 6.33% of the genome. Satellitome analysis reveals unusual, highly scattered organization of relatively short satDNA arrays across the whole genome. However, peculiar chromosomal distribution and densities are specific for each satDNA. The inspection of the organizational forms of the 11 most abundant satDNAs shows association with constitutive parts of Helitron mobile elements. Nine of the inspected satDNAs are dominantly found in mobile element-associated form, two mostly appear standalone, and only one is present exclusively as Helitron-associated sequence. The Helitron-related satDNAs appear in more chromosomes than other satDNAs, indicating that these mobile elements could be leading satDNA propagation in C. gigas. No significant accumulation of satDNAs on certain chromosomal positions was detected in C. gigas, thus establishing a novel pattern of satDNA organization on the genome level. |
format |
Article in Journal/Newspaper |
author |
Tunjić-Cvitanić, Monika Pasantes, Juan J. García-Souto, Daniel Cvitanić, Tonči Plohl, Miroslav Šatović-Vukšić, Eva |
author_facet |
Tunjić-Cvitanić, Monika Pasantes, Juan J. García-Souto, Daniel Cvitanić, Tonči Plohl, Miroslav Šatović-Vukšić, Eva |
author_sort |
Tunjić-Cvitanić, Monika |
title |
Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome |
title_short |
Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome |
title_full |
Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome |
title_fullStr |
Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome |
title_full_unstemmed |
Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome |
title_sort |
satellitome analysis of the pacific oyster crassostrea gigas reveals new pattern of satellite dna organization, highly scattered across the genome |
publisher |
MDPI |
publishDate |
2021 |
url |
http://fulir.irb.hr/6509/ http://fulir.irb.hr/6509/1/1136540.ijms-22-06798.pdf https://www.mdpi.com/1422-0067/22/13/6798 https://doi.org/10.3390/ijms22136798 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_source |
International journal of molecular sciences |
op_relation |
info:eu-repo/grantAgreement/HRZZ/IP/IP-2019-04-5522 http://fulir.irb.hr/6509/ https://www.mdpi.com/1422-0067/22/13/6798 doi:10.3390/ijms22136798 http://fulir.irb.hr/6509/1/1136540.ijms-22-06798.pdf |
op_rights |
info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.3390/ijms22136798 |
container_title |
International Journal of Molecular Sciences |
container_volume |
22 |
container_issue |
13 |
container_start_page |
6798 |
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1766393698565750784 |