Comparative organization of cattle chromosome 5 revealed by comparative mapping by annotation and sequence similarity and radiation hybrid mapping

Ozawa, Akihito; Band, Mark; Larson, Joshua H.; Donovan, Jena; Green, Cheryl A.; Womack, James E.; Lewin, Harris A.

doi:10.1073/pnas.050007097

Cited by 32 publications

(26 citation statements)

References 39 publications

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“…The average retention for the markers used in the previously published RH maps of BTA5 were similar Barendse et al, 2000;Ozawa et al, 2000).…”

Section: Discussionsupporting

confidence: 48%

“…The RH map of BTA5 (Figure 1) revealed no difference in marker order with the MARC linkage map or the RH maps published by Ozawa et al (2000) and Band et al (2000). However, these previously published maps show some order differences with the linkage map, within the segments MYF5-BMS610 and BM2830-ETH152.…”

Section: Discussionmentioning

confidence: 81%

“…Individual RH maps of BTA1, BTA5, BTA7, BTA13, BTA15, BTA18, BTA19, BTA23, BTA27, BTA29, and BTAX have been published (Schläpfer et al, 1997;Band et al, 1998;Yang et al, 1998;Gu et al, 1999;Rexroad et al, 1999Rexroad et al, , 2000Amarante et al, 2000;Ozawa et al, 2000;Amaral et al, 2002;Ashwell et al, 2002;Goldammer et al, 2002). Additionally, a first generation whole-genome cattle RH map has also been published http://cagst.animal.uiuc.edu).…”

Section: Introductionmentioning

confidence: 99%

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A methodological approach for the construction of a radiation hybrid map of bovine chromosome 5

Donato

Brenneman²,

Stelly

et al. 2004

Genet. Mol. Biol.

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A bovine 5,000 rad WG-RH panel was used to construct an RH map of bovine chromosome 5 (BTA5). Twenty-one microsatellites and thirteen genes were scored in the panel using PAGE and radioactive labeling. Marker retention ranged from 8.9%-25.8% and averaged 17.8%. Pairwise locus analysis placed all markers in a single syntenic group with a LOD support of 4.0. At a LOD support of 8.0, a centromeric group of 23 syntenic markers was formed. Telomeric groups of 11 and 9 markers were assembled with a LOD support of 6.0 and 8.0, respectively. All markers were ordered by maximum likelihood methods using the program RHMAP. Only 13 markers were ordered with a LOD support of at least 3.0, while 25 and 29 markers were ordered with a support of at least 2.0 and 1.0, respectively. Total length of the comprehensive RH map was 435.9 cR 5,000 , with an average marker separation of 12.8 cR 5,000 . The largest gaps in the map were 55.0 and 30.4 cR 5,000 in length. The locus orders of markers common to both the RH map and the USDA-MARC linkage map were identical. The relationship between the RH and linkage maps was calculated to be 3.74 cR 5,000 /cM.

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“…The average retention for the markers used in the previously published RH maps of BTA5 were similar Barendse et al, 2000;Ozawa et al, 2000).…”

Section: Discussionsupporting

confidence: 48%

Section: Discussionmentioning

confidence: 81%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

A methodological approach for the construction of a radiation hybrid map of bovine chromosome 5

Donato

Brenneman²,

Stelly

et al. 2004

Genet. Mol. Biol.

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“…This work has been followed by RH mapping in a number of other animal species (McCarthy et al 1997;Priat et al 1998;Yerle et al 1998;Hawken et al 1999;Hukriede et al 1999;Kwok et al 1999;Murphy et al 1999;Vignaux et al 1999;Watanabe et al 1999). In addition to whole-genome RH mapping, other researchers have focused on mapping specific chromosomes and chromosomal regions in different species as well (Hoover and Floros 1998;Barendse et al 2000;Ozawa et al 2000;Liu et al 2002;Rink et al 2002).…”

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confidence: 99%

High-Resolution Radiation Hybrid Map of Wheat Chromosome 1D

Kalavacharla

Hossain

et al. 2006

Genetics

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Physical mapping methods that do not rely on meiotic recombination are necessary for complex polyploid genomes such as wheat (Triticum aestivum L.). This need is due to the uneven distribution of recombination and significant variation in genetic to physical distance ratios. One method that has proven valuable in a number of nonplant and plant systems is radiation hybrid (RH) mapping. This work presents, for the first time, a high-resolution radiation hybrid map of wheat chromosome 1D (D genome) in a tetraploid durum wheat (T. turgidum L., AB genomes) background. An RH panel of 87 lines was used to map 378 molecular markers, which detected 2312 chromosome breaks. The total map distance ranged from $3,341 cR 35,000 for five major linkage groups to 11,773 cR 35,000 for a comprehensive map. The mapping resolution was estimated to be $199 kb/break and provided the starting point for BAC contig alignment. To date, this is the highest resolution that has been obtained by plant RH mapping and serves as a first step for the development of RH resources in wheat.

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“…A new strategy of comparative mapping by annotation and sequence similarity (COMPASS; ref. 18) has accelerated the comparative gene-mapping process (19,20). By using this approach, more than 1,000 markers were assigned and presented in a combined first generation cattle WGRH 5,000 and cattle͞human whole-genome comparative map (21).…”

mentioning

confidence: 99%

A comparative radiation hybrid map of bovine chromosome 18 and homologous chromosomes in human and mice

Goldammer

Kata²,

Brunner³

et al. 2002

Proc. Natl. Acad. Sci. U.S.A.

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A comprehensive radiation hybrid (RH) map and a high resolution comparative map of Bos taurus (BTA) chromosome 18 were constructed, composed of 103 markers and 76 markers, respectively, by using a cattle-hamster somatic hybrid cell panel and a 5,000 rad whole-genome radiation hybrid (WGRH) panel. These maps include 65 new assignments (56 genes, 3 expressed-sequence tags, 6 microsatellites) and integrate 38 markers from the first generation WGRH5,000 map of BTA18. Fifty-nine assignments of coding sequences were supported by somatic hybrid cell mapping to markers on BTA18. The total length of the comprehensive map was 1666 cR5,000. Break-point positions within the chromosome were refined and a new telomeric RH linkage group was established. Conserved synteny between cattle, human, and mouse was found for 76 genes of BTA18 and human chromosomes (HSA) 16 and 19 and for 34 cattle genes and mouse chromosomes (MMU) 7 and 8. The new RH map is potentially useful for the identification of candidate genes for economically important traits, contributes to the expansion of the existing BTA18 gene map, and provides new information about the chromosome evolution in cattle, humans, and mice.

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Comparative organization of cattle chromosome 5 revealed by comparative mapping by annotation and sequence similarity and radiation hybrid mapping

Cited by 32 publications

References 39 publications

A methodological approach for the construction of a radiation hybrid map of bovine chromosome 5

A methodological approach for the construction of a radiation hybrid map of bovine chromosome 5

High-Resolution Radiation Hybrid Map of Wheat Chromosome 1D

A comparative radiation hybrid map of bovine chromosome 18 and homologous chromosomes in human and mice

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