Advanced resources for plant genomics: a BAC library specific for the short arm of wheat chromosome 1B
Jaroslav J. Janda
(1)
,
Jan J. Safar
(1)
,
Marie M. Kubalakova
(1, 2)
,
Jan J. Bartos
(1)
,
Pavlina P. Kovarova
(1)
,
Pavla P. Suchankova
(1)
,
Stephanie S. Pateyron
(3)
,
Jarmila J. Cihalikova
(1, 2)
,
Pierre Sourdille
(4)
,
Hana H. Simkova
(1)
,
Patricia P. Faivre-Rampant
(3)
,
Eva E. Hribova
(1)
,
Michel M. Bernard
(4)
,
Adam A. Lukaszewski
(5)
,
Jaroslav J. Dolezel
(1, 2)
,
Paul P. Chalhoub
(3)
Pierre Sourdille
- Fonction : Auteur
- PersonId : 749552
- IdHAL : pierre-sourdille
- ORCID : 0000-0002-1027-2224
- IdRef : 139291075
Patricia P. Faivre-Rampant
- Fonction : Auteur
- PersonId : 1203095
Résumé
Common wheat (Triticum aestivum L., 2n = 6x = 42) is a polyploid species possessing one of the largest genomes among the cultivated crops (1C is approximately 17 000 Mb). The presence of three homoeologous genomes (A, B and D), and the prevalence of repetitive DNA make sequencing the wheat genome a daunting task. We have developed a novel 'chromosome arm-based' strategy for wheat genome sequencing to simplify this task; this relies on sub-genomic libraries of large DNA inserts. In this paper, we used a di-telosomic line of wheat to isolate six million copies of the short arm of chromosome 1B (1BS) by flow sorting. Chromosomal DNA was partially digested with HindIII and used to construct an arm-specific BAC library. The library consists of 65 280 clones with an average insert size of 82 kb. Almost half of the library (45%) has inserts larger than 100 kb, while 18% of the inserts range in size between 75 and 100 kb, and 37% are shorter than 75 kb. We estimated the chromosome arm coverage to be 14.5-fold, giving a 99.9% probability of identifying a clone corresponding to any sequence on the short arm of 1B. Each chromosome arm in wheat can be flow sorted from an appropriate cytogenetic stock, and we envisage that the availability of chromosome arm-specific BAC resources in wheat will greatly facilitate the development of ready-to-sequence physical maps and map-based gene cloning.
Domaines
Génétique des plantesFormat du dépôt | Notice |
---|---|
Type de dépôt | Article dans une revue |
Titre |
en
Advanced resources for plant genomics: a BAC library specific for the short arm of wheat chromosome 1B
|
Résumé |
en
Common wheat (Triticum aestivum L., 2n = 6x = 42) is a polyploid species possessing one of the largest genomes among the cultivated crops (1C is approximately 17 000 Mb). The presence of three homoeologous genomes (A, B and D), and the prevalence of repetitive DNA make sequencing the wheat genome a daunting task. We have developed a novel 'chromosome arm-based' strategy for wheat genome sequencing to simplify this task; this relies on sub-genomic libraries of large DNA inserts. In this paper, we used a di-telosomic line of wheat to isolate six million copies of the short arm of chromosome 1B (1BS) by flow sorting. Chromosomal DNA was partially digested with HindIII and used to construct an arm-specific BAC library. The library consists of 65 280 clones with an average insert size of 82 kb. Almost half of the library (45%) has inserts larger than 100 kb, while 18% of the inserts range in size between 75 and 100 kb, and 37% are shorter than 75 kb. We estimated the chromosome arm coverage to be 14.5-fold, giving a 99.9% probability of identifying a clone corresponding to any sequence on the short arm of 1B. Each chromosome arm in wheat can be flow sorted from an appropriate cytogenetic stock, and we envisage that the availability of chromosome arm-specific BAC resources in wheat will greatly facilitate the development of ready-to-sequence physical maps and map-based gene cloning.
|
Auteur(s) |
Jaroslav J. Janda
1
, Jan J. Safar
1
, Marie M. Kubalakova
1, 2
, Jan J. Bartos
1
, Pavlina P. Kovarova
1
, Pavla P. Suchankova
1
, Stephanie S. Pateyron
3
, Jarmila J. Cihalikova
1, 2
, Pierre Sourdille
4
, Hana H. Simkova
1
, Patricia P. Faivre-Rampant
3
, Eva E. Hribova
1
, Michel M. Bernard
4
, Adam A. Lukaszewski
5
, Jaroslav J. Dolezel
1, 2
, Paul P. Chalhoub
3
1
Laboratory of molecular cytogenetics and cytometry
( 248605 )
- Sokolovska 6 Olomouc
- Tchéquie
2
Department of Cell Biology and Genetics
( 248606 )
- Slechtitelu 11 Olomouc
- Tchéquie
3
URGV -
Unité de recherche en génomique végétale
( 1258 )
- 2, rue G. Crémieux - BP 5708 91057 EVRY CEDEX
- France
4
GDEC -
Génétique Diversité et Ecophysiologie des Céréales
( 133378 )
- Site INRAE Crouël : 5, Chemin de Beaulieu, 63039 Clermont-Ferrand // Site Clermont : Campus Universitaire des Cézeaux, TSA 60026, 1 Impasse Amélie Murat, 63178 Aubière
- France
5
Department of Botany and Plant Sciences [Riverside]
( 116069 )
- University of California, Riverside 900 University Ave. Riverside, CA 92521
- États-Unis
|
Comité de lecture |
Oui
|
Vulgarisation |
Non
|
Langue du document |
Anglais
|
Nom de la revue |
|
Audience |
Non spécifiée
|
Volume |
47
|
Numéro |
6
|
Page/Identifiant |
977-986
|
Public visé |
Scientifique
|
Date de publication |
2006-08
|
Domaine(s) |
|
Mots-clés |
en
WHEAT, GENOMICS, PHYSICAL MAPPING, BAC RESOURCES, CHROMOSOME SORTING, FLOW CYTOMETRY
|
DOI | 10.1111/j.1365-313X.2006.02840.x |
ProdINRA | 13736 |
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