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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ftdoajarticles:oai:doaj.org/article:d90c154daea4487296e8b8e960d39656 2023-05-15T15:57:39+02:00 Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome Monika Tunjić-Cvitanić Juan J. Pasantes Daniel García-Souto Tonči Cvitanić Miroslav Plohl Eva Šatović-Vukšić 2021-06-01T00:00:00Z https://doi.org/10.3390/ijms22136798 https://doaj.org/article/d90c154daea4487296e8b8e960d39656 EN eng MDPI AG https://www.mdpi.com/1422-0067/22/13/6798 https://doaj.org/toc/1661-6596 https://doaj.org/toc/1422-0067 doi:10.3390/ijms22136798 1422-0067 1661-6596 https://doaj.org/article/d90c154daea4487296e8b8e960d39656 International Journal of Molecular Sciences, Vol 22, Iss 6798, p 6798 (2021) satellite DNA satellitome mobile element Helitron bivalve Crassostrea gigas Biology (General) QH301-705.5 Chemistry QD1-999 article 2021 ftdoajarticles https://doi.org/10.3390/ijms22136798 2022-12-31T15:29:15Z 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 Directory of Open Access Journals: DOAJ Articles Pacific International Journal of Molecular Sciences 22 13 6798 |
institution |
Open Polar |
collection |
Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
satellite DNA satellitome mobile element Helitron bivalve Crassostrea gigas Biology (General) QH301-705.5 Chemistry QD1-999 |
spellingShingle |
satellite DNA satellitome mobile element Helitron bivalve Crassostrea gigas Biology (General) QH301-705.5 Chemistry QD1-999 Monika Tunjić-Cvitanić Juan J. Pasantes Daniel García-Souto Tonči Cvitanić Miroslav Plohl Eva Šatović-Vukšić Satellitome Analysis of the Pacific Oyster Crassostrea gigas Reveals New Pattern of Satellite DNA Organization, Highly Scattered across the Genome |
topic_facet |
satellite DNA satellitome mobile element Helitron bivalve Crassostrea gigas Biology (General) QH301-705.5 Chemistry QD1-999 |
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 |
Monika Tunjić-Cvitanić Juan J. Pasantes Daniel García-Souto Tonči Cvitanić Miroslav Plohl Eva Šatović-Vukšić |
author_facet |
Monika Tunjić-Cvitanić Juan J. Pasantes Daniel García-Souto Tonči Cvitanić Miroslav Plohl Eva Šatović-Vukšić |
author_sort |
Monika Tunjić-Cvitanić |
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 AG |
publishDate |
2021 |
url |
https://doi.org/10.3390/ijms22136798 https://doaj.org/article/d90c154daea4487296e8b8e960d39656 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_source |
International Journal of Molecular Sciences, Vol 22, Iss 6798, p 6798 (2021) |
op_relation |
https://www.mdpi.com/1422-0067/22/13/6798 https://doaj.org/toc/1661-6596 https://doaj.org/toc/1422-0067 doi:10.3390/ijms22136798 1422-0067 1661-6596 https://doaj.org/article/d90c154daea4487296e8b8e960d39656 |
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 |
_version_ |
1766393322468802560 |