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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ftmdpi:oai:mdpi.com:/1422-0067/22/13/6798/ 2023-08-20T04:06:01+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 agris 2021-06-24 application/pdf https://doi.org/10.3390/ijms22136798 EN eng Multidisciplinary Digital Publishing Institute Molecular Genetics and Genomics https://dx.doi.org/10.3390/ijms22136798 https://creativecommons.org/licenses/by/4.0/ International Journal of Molecular Sciences; Volume 22; Issue 13; Pages: 6798 satellite DNA satellitome mobile element Helitron bivalve Crassostrea gigas Text 2021 ftmdpi https://doi.org/10.3390/ijms22136798 2023-08-01T02:01:53Z 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. Text Crassostrea gigas Pacific oyster MDPI Open Access Publishing Pacific International Journal of Molecular Sciences 22 13 6798 |
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Open Polar |
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MDPI Open Access Publishing |
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ftmdpi |
language |
English |
topic |
satellite DNA satellitome mobile element Helitron bivalve Crassostrea gigas |
spellingShingle |
satellite DNA satellitome mobile element Helitron bivalve Crassostrea gigas 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 |
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 |
Text |
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 |
Multidisciplinary Digital Publishing Institute |
publishDate |
2021 |
url |
https://doi.org/10.3390/ijms22136798 |
op_coverage |
agris |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_source |
International Journal of Molecular Sciences; Volume 22; Issue 13; Pages: 6798 |
op_relation |
Molecular Genetics and Genomics https://dx.doi.org/10.3390/ijms22136798 |
op_rights |
https://creativecommons.org/licenses/by/4.0/ |
op_doi |
https://doi.org/10.3390/ijms22136798 |
container_title |
International Journal of Molecular Sciences |
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22 |
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13 |
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6798 |
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1774716920141971456 |