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פותח על ידי קלירמאש פתרונות בע"מ -
Identification of repetitive elements in the genome of Oreochromis niloticus: Tilapia repeat masker
Year:
2010
Source of publication :
Marine Biotechnology
Authors :
חולתא, גדעון
;
.
סרוסי, אייל
;
.
רון, מיכה
;
.
שיראק, אנדרי
;
.
Volume :
12
Co-Authors:
Shirak, A., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Grabherr, M., Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, MA 02141, United States
Di Palma, F., Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, MA 02141, United States
Lindblad-Toh, K., Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, MA 02141, United States
Hulata, G., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Ron, M., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Kocher, T.D., Department of Biology, University of Maryland, College Park, MD 20742, United States
Seroussi, E., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Facilitators :
From page:
121
To page:
125
(
Total pages:
5
)
Abstract:
The large-scale bacterial artificial chromosome-end sequencing project of Nile tilapia (Oreochromis niloticus) has generated extensive sequence data that allowed the examination of the repeat content in this fish genome and building of a repeat library specific for this species. This library was established based on Tilapiini repeat sequences from GenBank, sequences orthologous to the repeat library of zebrafish in Repbase, and novel repeats detected by genome analysis using MIRA assembler. We estimate that repeats constitute about 14% of the tilapia genome and also give estimates for the occurrence of the different repeats based on the Basic Local Alignment Search Tool searches within the database of known tilapia sequences. The frequent occurrence of novel repeats in the tilapia genome indicates the importance of using the species-specific repeat masker prior to sequence analyses. A web tool based on the RepeatMasker software was designed to assist tilapia genomics. © 2009 Springer Science+Business Media, LLC.
Note:
Related Files :
Animals
Danio rerio
Genetics
Oreochromis niloticus
Tilapia
עוד תגיות
תוכן קשור
More details
DOI :
10.1007/s10126-009-9236-8
Article number:
Affiliations:
Database:
סקופוס
Publication Type:
מאמר
;
.
Language:
אנגלית
Editors' remarks:
ID:
21867
Last updated date:
02/03/2022 17:27
Creation date:
16/04/2018 23:47
Scientific Publication
Identification of repetitive elements in the genome of Oreochromis niloticus: Tilapia repeat masker
12
Shirak, A., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Grabherr, M., Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, MA 02141, United States
Di Palma, F., Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, MA 02141, United States
Lindblad-Toh, K., Broad Institute of Harvard and MIT, 320 Charles Street, Cambridge, MA 02141, United States
Hulata, G., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Ron, M., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Kocher, T.D., Department of Biology, University of Maryland, College Park, MD 20742, United States
Seroussi, E., Agricultural Research Organization, Institute of Animal Science, Bet Dagan 50250, Israel
Identification of repetitive elements in the genome of Oreochromis niloticus: Tilapia repeat masker
The large-scale bacterial artificial chromosome-end sequencing project of Nile tilapia (Oreochromis niloticus) has generated extensive sequence data that allowed the examination of the repeat content in this fish genome and building of a repeat library specific for this species. This library was established based on Tilapiini repeat sequences from GenBank, sequences orthologous to the repeat library of zebrafish in Repbase, and novel repeats detected by genome analysis using MIRA assembler. We estimate that repeats constitute about 14% of the tilapia genome and also give estimates for the occurrence of the different repeats based on the Basic Local Alignment Search Tool searches within the database of known tilapia sequences. The frequent occurrence of novel repeats in the tilapia genome indicates the importance of using the species-specific repeat masker prior to sequence analyses. A web tool based on the RepeatMasker software was designed to assist tilapia genomics. © 2009 Springer Science+Business Media, LLC.
Scientific Publication
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