摘要
A fine physical map of the rice (Oryza sativa spp. Japonica var. Nipponbare) chromosome 5 with bacterial artificial chromosome (BAC) and PI-derived artificial chromosome (PAC) clones was constructed through integration of 280 sequenced BAC/PAC clones and 232 sequence tagged site/expressed sequence tag markers with the use of fingerprinted contig data of the Nipponbare genome. This map consists of five contigs covering 99% of the estimated chromosome size (30.08 Mb). The four physical gaps were estimated at 30 and 20 kb for gaps 1-3 and gap 4, respectively. We have submitted 42.2-Mb sequences with 29.8 Mb of nonoverlapping sequences to public databases. BAC clones corresponding to telomere and centromere regions were confirmed by BAC-fluorescence in situ hybridization (FISH) on a pachytene chromosome. The genetically centromeric region at 54.6 cM was covered by a minimum tiling path spanning 2.1 Mb with no physical gaps. The precise position of the centromere was revealed by using three overlapping BAC/PACs for ∼150 kb. In addition, FISH results revealed uneven chromatin condensation around the centromeric region at the pachytene stage. This map is of use for positional cloning and further characterization of the rice functional genomics.
| 原文 | 英語 |
|---|---|
| 頁（從 - 到） | 337-345 |
| 頁數 | 9 |
| 期刊 | Molecular Genetics and Genomics |
| 卷 | 274 |
| 發行號 | 4 |
| DOIs | |
| 出版狀態 | 已發佈 - 十一月 2005 |
| 對外發佈 | Yes |
指紋
ASJC Scopus subject areas
- Genetics
引用此文
A fine physical map of the rice chromosome 5. / Cheng, Chia Hsiung; Chung, Mei Chu; Liu, Shu Mei; Chen, Shi Kuang; Kao, Fang Yi; Lin, Shu Jen; Hsiao, Shin Hsin; Tseng, I. Chieh; Hsing, Yue Ie C; Wu, Hong Pang; Chen, Ching San; Shaw, Jei Fu; Wu, Jianzhong; Matsumoto, Takashi; Sasaki, Takuji; Chen, Hong Hwa; Chow, Teh Yuan.
於: Molecular Genetics and Genomics, 卷 274, 編號 4, 11.2005, p. 337-345.研究成果: 雜誌貢獻 › 文章
}
TY - JOUR
T1 - A fine physical map of the rice chromosome 5
AU - Cheng, Chia Hsiung
AU - Chung, Mei Chu
AU - Liu, Shu Mei
AU - Chen, Shi Kuang
AU - Kao, Fang Yi
AU - Lin, Shu Jen
AU - Hsiao, Shin Hsin
AU - Tseng, I. Chieh
AU - Hsing, Yue Ie C
AU - Wu, Hong Pang
AU - Chen, Ching San
AU - Shaw, Jei Fu
AU - Wu, Jianzhong
AU - Matsumoto, Takashi
AU - Sasaki, Takuji
AU - Chen, Hong Hwa
AU - Chow, Teh Yuan
PY - 2005/11
Y1 - 2005/11
N2 - A fine physical map of the rice (Oryza sativa spp. Japonica var. Nipponbare) chromosome 5 with bacterial artificial chromosome (BAC) and PI-derived artificial chromosome (PAC) clones was constructed through integration of 280 sequenced BAC/PAC clones and 232 sequence tagged site/expressed sequence tag markers with the use of fingerprinted contig data of the Nipponbare genome. This map consists of five contigs covering 99% of the estimated chromosome size (30.08 Mb). The four physical gaps were estimated at 30 and 20 kb for gaps 1-3 and gap 4, respectively. We have submitted 42.2-Mb sequences with 29.8 Mb of nonoverlapping sequences to public databases. BAC clones corresponding to telomere and centromere regions were confirmed by BAC-fluorescence in situ hybridization (FISH) on a pachytene chromosome. The genetically centromeric region at 54.6 cM was covered by a minimum tiling path spanning 2.1 Mb with no physical gaps. The precise position of the centromere was revealed by using three overlapping BAC/PACs for ∼150 kb. In addition, FISH results revealed uneven chromatin condensation around the centromeric region at the pachytene stage. This map is of use for positional cloning and further characterization of the rice functional genomics.
AB - A fine physical map of the rice (Oryza sativa spp. Japonica var. Nipponbare) chromosome 5 with bacterial artificial chromosome (BAC) and PI-derived artificial chromosome (PAC) clones was constructed through integration of 280 sequenced BAC/PAC clones and 232 sequence tagged site/expressed sequence tag markers with the use of fingerprinted contig data of the Nipponbare genome. This map consists of five contigs covering 99% of the estimated chromosome size (30.08 Mb). The four physical gaps were estimated at 30 and 20 kb for gaps 1-3 and gap 4, respectively. We have submitted 42.2-Mb sequences with 29.8 Mb of nonoverlapping sequences to public databases. BAC clones corresponding to telomere and centromere regions were confirmed by BAC-fluorescence in situ hybridization (FISH) on a pachytene chromosome. The genetically centromeric region at 54.6 cM was covered by a minimum tiling path spanning 2.1 Mb with no physical gaps. The precise position of the centromere was revealed by using three overlapping BAC/PACs for ∼150 kb. In addition, FISH results revealed uneven chromatin condensation around the centromeric region at the pachytene stage. This map is of use for positional cloning and further characterization of the rice functional genomics.
KW - Centromere
KW - Contig
KW - Fluorescence in situ hybridization (FISH)
KW - Physical mapping
KW - Rice chromosome 5
UR - http://www.scopus.com/inward/record.url?scp=27844571318&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=27844571318&partnerID=8YFLogxK
U2 - 10.1007/s00438-005-0039-y
DO - 10.1007/s00438-005-0039-y
M3 - Article
C2 - 16261349
AN - SCOPUS:27844571318
VL - 274
SP - 337
EP - 345
JO - Molecular Genetics and Genomics
JF - Molecular Genetics and Genomics
SN - 1617-4615
IS - 4
ER -