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...
Published in: | International Journal of Molecular Sciences |
---|---|
Main Authors: | , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
International Journal of Molecular Sciences
2021
|
Subjects: | |
Online Access: | http://hdl.handle.net/11093/2977 https://doi.org/10.3390/ijms22136798 https://www.mdpi.com/1422-0067/22/13/6798 |
id |
ftunivvigo:oai:investigo.biblioteca.uvigo.es:11093/2977 |
---|---|
record_format |
openpolar |
spelling |
ftunivvigo:oai:investigo.biblioteca.uvigo.es:11093/2977 2023-05-15T15:58:08+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 Ludeña, Juan José García Souto, Daniel Cvitanić, Tonči Plohl, Miroslav Šatović Vukšić, Eva 2021-06-24 http://hdl.handle.net/11093/2977 https://doi.org/10.3390/ijms22136798 https://www.mdpi.com/1422-0067/22/13/6798 eng eng International Journal of Molecular Sciences Bioquímica, xenética e inmunoloxía Xenética de Poboacións e Citoxenética International Journal of Molecular Sciences, 22(13): 6798 (2021) 14220067 http://hdl.handle.net/11093/2977 doi:10.3390/ijms22136798 https://www.mdpi.com/1422-0067/22/13/6798 openAccess 2401.08 Genética Animal 2409.03 Genética de Poblaciones 2407.02 Citogenética article 2021 ftunivvigo https://doi.org/10.3390/ijms22136798 2022-02-28T19:38:31Z 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. Hrvatska Zaklada za Znanost | Ref. IP-2019-045522 Xunta de Galicia | Ref. ED481B/2018/091 Xunta de Galicia | Ref. ED431C 2020/05 Article in Journal/Newspaper Crassostrea gigas Pacific oyster University of Vigo: Investigo (Repositorio Institucional de la Universidade de Vigo) Pacific International Journal of Molecular Sciences 22 13 6798 |
institution |
Open Polar |
collection |
University of Vigo: Investigo (Repositorio Institucional de la Universidade de Vigo) |
op_collection_id |
ftunivvigo |
language |
English |
topic |
2401.08 Genética Animal 2409.03 Genética de Poblaciones 2407.02 Citogenética |
spellingShingle |
2401.08 Genética Animal 2409.03 Genética de Poblaciones 2407.02 Citogenética Tunjić Cvitanić, Monika Pasantes Ludeña, Juan José 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 |
2401.08 Genética Animal 2409.03 Genética de Poblaciones 2407.02 Citogenética |
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. Hrvatska Zaklada za Znanost | Ref. IP-2019-045522 Xunta de Galicia | Ref. ED481B/2018/091 Xunta de Galicia | Ref. ED431C 2020/05 |
format |
Article in Journal/Newspaper |
author |
Tunjić Cvitanić, Monika Pasantes Ludeña, Juan José García Souto, Daniel Cvitanić, Tonči Plohl, Miroslav Šatović Vukšić, Eva |
author_facet |
Tunjić Cvitanić, Monika Pasantes Ludeña, Juan José 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 |
International Journal of Molecular Sciences |
publishDate |
2021 |
url |
http://hdl.handle.net/11093/2977 https://doi.org/10.3390/ijms22136798 https://www.mdpi.com/1422-0067/22/13/6798 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_relation |
International Journal of Molecular Sciences, 22(13): 6798 (2021) 14220067 http://hdl.handle.net/11093/2977 doi:10.3390/ijms22136798 https://www.mdpi.com/1422-0067/22/13/6798 |
op_rights |
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 |
_version_ |
1766393857126170624 |