A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects
Abstract Background As farming of Atlantic salmon is growing as an aquaculture enterprise, the need to identify the genomic mechanisms for specific traits is becoming more important in breeding and management of the animal. Traits of importance might be related to growth, disease resistance, food co...
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ftdoajarticles:oai:doaj.org/article:05967b7a5baf4637a80d28c8de153721 2023-05-15T15:30:40+02:00 A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects Koop Ben F de Jong Pieter J Osoegawa Kazutoyo Frengen Eirik Zhu Baoli Thorsen Jim Davidson William S Høyheim Bjørn 2005-04-01T00:00:00Z https://doi.org/10.1186/1471-2164-6-50 https://doaj.org/article/05967b7a5baf4637a80d28c8de153721 EN eng BMC http://www.biomedcentral.com/1471-2164/6/50 https://doaj.org/toc/1471-2164 doi:10.1186/1471-2164-6-50 1471-2164 https://doaj.org/article/05967b7a5baf4637a80d28c8de153721 BMC Genomics, Vol 6, Iss 1, p 50 (2005) Biotechnology TP248.13-248.65 Genetics QH426-470 article 2005 ftdoajarticles https://doi.org/10.1186/1471-2164-6-50 2022-12-31T04:53:20Z Abstract Background As farming of Atlantic salmon is growing as an aquaculture enterprise, the need to identify the genomic mechanisms for specific traits is becoming more important in breeding and management of the animal. Traits of importance might be related to growth, disease resistance, food conversion efficiency, color or taste. To identify genomic regions responsible for specific traits, genomic large insert libraries have previously proven to be of crucial importance. These large insert libraries can be screened using gene or genetic markers in order to identify and map regions of interest. Furthermore, large-scale mapping can utilize highly redundant libraries in genome projects, and hence provide valuable data on the genome structure. Results Here we report the construction and characterization of a highly redundant bacterial artificial chromosome (BAC) library constructed from a Norwegian aquaculture strain male of Atlantic salmon ( Salmo salar ). The library consists of a total number of 305 557 clones, in which approximately 299 000 are recombinants. The average insert size of the library is 188 kbp, representing 18-fold genome coverage. High-density filters each consisting of 18 432 clones spotted in duplicates have been produced for hybridization screening, and are publicly available 1 . To characterize the library, 15 expressed sequence tags (ESTs) derived overgos and 12 oligo sequences derived from microsatellite markers were used in hybridization screening of the complete BAC library. Secondary hybridizations with individual probes were performed for the clones detected. The BACs positive for the EST probes were fingerprinted and mapped into contigs, yielding an average of 3 contigs for each probe. Clones identified using genomic probes were PCR verified using microsatellite specific primers. Conclusion Identification of genes and genomic regions of interest is greatly aided by the availability of the CHORI-214 Atlantic salmon BAC library. We have demonstrated the library's ability to identify ... Article in Journal/Newspaper Atlantic salmon Salmo salar Directory of Open Access Journals: DOAJ Articles BMC Genomics 6 1 |
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Directory of Open Access Journals: DOAJ Articles |
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Biotechnology TP248.13-248.65 Genetics QH426-470 |
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Biotechnology TP248.13-248.65 Genetics QH426-470 Koop Ben F de Jong Pieter J Osoegawa Kazutoyo Frengen Eirik Zhu Baoli Thorsen Jim Davidson William S Høyheim Bjørn A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects |
topic_facet |
Biotechnology TP248.13-248.65 Genetics QH426-470 |
description |
Abstract Background As farming of Atlantic salmon is growing as an aquaculture enterprise, the need to identify the genomic mechanisms for specific traits is becoming more important in breeding and management of the animal. Traits of importance might be related to growth, disease resistance, food conversion efficiency, color or taste. To identify genomic regions responsible for specific traits, genomic large insert libraries have previously proven to be of crucial importance. These large insert libraries can be screened using gene or genetic markers in order to identify and map regions of interest. Furthermore, large-scale mapping can utilize highly redundant libraries in genome projects, and hence provide valuable data on the genome structure. Results Here we report the construction and characterization of a highly redundant bacterial artificial chromosome (BAC) library constructed from a Norwegian aquaculture strain male of Atlantic salmon ( Salmo salar ). The library consists of a total number of 305 557 clones, in which approximately 299 000 are recombinants. The average insert size of the library is 188 kbp, representing 18-fold genome coverage. High-density filters each consisting of 18 432 clones spotted in duplicates have been produced for hybridization screening, and are publicly available 1 . To characterize the library, 15 expressed sequence tags (ESTs) derived overgos and 12 oligo sequences derived from microsatellite markers were used in hybridization screening of the complete BAC library. Secondary hybridizations with individual probes were performed for the clones detected. The BACs positive for the EST probes were fingerprinted and mapped into contigs, yielding an average of 3 contigs for each probe. Clones identified using genomic probes were PCR verified using microsatellite specific primers. Conclusion Identification of genes and genomic regions of interest is greatly aided by the availability of the CHORI-214 Atlantic salmon BAC library. We have demonstrated the library's ability to identify ... |
format |
Article in Journal/Newspaper |
author |
Koop Ben F de Jong Pieter J Osoegawa Kazutoyo Frengen Eirik Zhu Baoli Thorsen Jim Davidson William S Høyheim Bjørn |
author_facet |
Koop Ben F de Jong Pieter J Osoegawa Kazutoyo Frengen Eirik Zhu Baoli Thorsen Jim Davidson William S Høyheim Bjørn |
author_sort |
Koop Ben F |
title |
A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects |
title_short |
A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects |
title_full |
A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects |
title_fullStr |
A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects |
title_full_unstemmed |
A highly redundant BAC library of Atlantic salmon ( Salmo salar ): an important tool for salmon projects |
title_sort |
highly redundant bac library of atlantic salmon ( salmo salar ): an important tool for salmon projects |
publisher |
BMC |
publishDate |
2005 |
url |
https://doi.org/10.1186/1471-2164-6-50 https://doaj.org/article/05967b7a5baf4637a80d28c8de153721 |
genre |
Atlantic salmon Salmo salar |
genre_facet |
Atlantic salmon Salmo salar |
op_source |
BMC Genomics, Vol 6, Iss 1, p 50 (2005) |
op_relation |
http://www.biomedcentral.com/1471-2164/6/50 https://doaj.org/toc/1471-2164 doi:10.1186/1471-2164-6-50 1471-2164 https://doaj.org/article/05967b7a5baf4637a80d28c8de153721 |
op_doi |
https://doi.org/10.1186/1471-2164-6-50 |
container_title |
BMC Genomics |
container_volume |
6 |
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1 |
_version_ |
1766361126680920064 |