Distribution of genes and recombination in wheat and other eukaryotes

Sidhu, Deepak; Gill, Kulvinder S.

doi:10.1007/s11240-005-2487-9

Cited by 33 publications

(38 citation statements)

References 94 publications

(111 reference statements)

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“…similar to that of higher plants like maize or sunflower; Arumuganathan and Earle, 1991). Despite differences in genome size, the number of genes in higher plants is expected to be similar, although increases due to ploidy changes are to be expected (Sidhu and Gill, 2004). The estimated gene number for Arabidopsis is 25,000 (Arabidopsis Genome Initiative, 2000).…”

Section: Discussionmentioning

confidence: 99%

“…The estimated gene number for Arabidopsis is 25,000 (Arabidopsis Genome Initiative, 2000). In all eukaryotes, genes are interspersed with gene-empty regions and the size of such regions seems to be related to the genome size (Sidhu and Gill, 2004). Genes in the majority of plants appear to be clustered; the main change from plants with smaller genomes (Arabidopsis and rice) to larger genomes (barley [Hordeum vulgare], maize, and wheat [Triticum aestivum]) is the overall reduction in size of the gene cluster and expansion of the interspersed gene-empty regions (Aert et al, 2004;Sidhu and Gill, 2004).…”

Section: Discussionmentioning

confidence: 99%

“…In all eukaryotes, genes are interspersed with gene-empty regions and the size of such regions seems to be related to the genome size (Sidhu and Gill, 2004). Genes in the majority of plants appear to be clustered; the main change from plants with smaller genomes (Arabidopsis and rice) to larger genomes (barley [Hordeum vulgare], maize, and wheat [Triticum aestivum]) is the overall reduction in size of the gene cluster and expansion of the interspersed gene-empty regions (Aert et al, 2004;Sidhu and Gill, 2004). Whereas in the smaller genome of Arabidopsis, about 45% of the chromosomal DNA contains genes, the gene space is believed to occupy only about 12% to 24% of the large genomes (Barakat et al, 1997).…”

Section: Discussionmentioning

confidence: 99%

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Successful Gene Tagging in Lettuce Using the Tnt1 Retrotransposon from Tobacco

Mazier¹,

Botton²,

Flamain³

et al. 2007

Plant Physiol.

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The tobacco (Nicotiana tabacum) element Tnt1 is one of the few identified active retrotransposons in plants. These elements possess unique properties that make them ideal genetic tools for gene tagging. Here, we demonstrate the feasibility of gene tagging using the retrotransposon Tnt1 in lettuce (Lactuca sativa), which is the largest genome tested for retrotransposon mutagenesis so far. Of 10 different transgenic bushes carrying a complete Tnt1 containing T-DNA, eight contained multiple transposed copies of Tnt1. The number of transposed copies of the element per plant was particularly high, the smallest number being 28. Tnt1 transposition in lettuce can be induced by a very simple in vitro culture protocol. Tnt1 insertions were stable in the progeny of the primary transformants and could be segregated genetically. Characterization of the sequences flanking some insertion sites revealed that Tnt1 often inserted into genes. The progeny of some primary transformants showed phenotypic alterations due to recessive mutations. One of these mutations was due to Tnt1 insertion in the gibberellin 3b-hydroxylase gene. Taken together, these results indicate that Tnt1 is a powerful tool for insertion mutagenesis especially in plants with a large genome.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

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Successful Gene Tagging in Lettuce Using the Tnt1 Retrotransposon from Tobacco

Mazier¹,

Botton²,

Flamain³

et al. 2007

Plant Physiol.

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“…Previous studies in wheat indicated that recombination occurs mainly in the telomeric regions of the 1 chromosomes with a gradient from the centromeres to the telomeres (Lukaszewski and Curtis 1993;Erayman et al 2004;Sidhu and Gill 2004;See et al 2006). The recombination gradient was proposed to be correlated with gene content.…”

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confidence: 99%

Detailed Recombination Studies Along Chromosome 3B Provide New Insights on Crossover Distribution in Wheat (Triticum aestivum L.)

et al. 2009

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In wheat (Triticum aestivum L.), the crossover (CO) frequency increases gradually from the centromeres to the telomeres. However, little is known about the factors affecting both the distribution and the intensity of recombination along this gradient. To investigate this, we studied in detail the pattern of CO along chromosome 3B of bread wheat. A dense reference genetic map comprising 102 markers homogeneously distributed along the chromosome was compared to a physical deletion map. Most of the COs (90%) occurred in the distal subtelomeric regions that represent 40% of the chromosome. About 27% of the proximal regions surrounding the centromere showed a very weak CO frequency with only three COs found in the 752 gametes studied. Moreover, we observed a clear decrease of CO frequency on the distal region of the short arm. Finally, the intensity of interference was assessed for the first time in wheat using a Gamma model. The results showed m values of 1.2 for male recombination and 3.5 for female recombination, suggesting positive interference along wheat chromosome 3B.

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“…Triticum aestivum ͉ rice and wheat BAC contigs B read wheat (Triticum aestivum L., 2n ϭ 6x ϭ 42) possesses 16 billion base pairs per haploid genome, of which only 1-5% are expected to represent genes (1). Physical mapping of 3,025 gene loci on 334 single-break deletion lines identified 18 major and 30 minor gene-rich regions (GRRs), accounting for 85% of known genes and encompassing only Ϸ29% of the genome (2).…”

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confidence: 99%

Fine structure mapping of a gene-rich region of wheat carrying Ph1 , a suppressor of crossing over between homoeologous chromosomes

Sidhu

Rustgi

Shafqat

et al. 2008

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

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The wheat gene-rich region (GRR) 5L0.5 contains many important genes, including Ph1 , the principal regulator of chromosome pairing. Comparative marker analysis identified 32 genes for the GRR controlling important agronomic traits. Detailed characterization of this region was accomplished by first physically localizing 213 wheat group 5L-specific markers, using group 5 nulli-tetrasomics, three Ph1 gene deletion/insertion mutants, and nine terminal deletion lines with their breakpoints around the 5L0.5 region. The Ph1 gene was localized to a much smaller region within the GRR ( Ph1 gene region). Of the 61 markers that mapped in the four subregions of the GRR, 9 mapped in the Ph1 gene region. High stringency sequence comparison ( e < 1 ×10 −25 ) of 157 group 5L-specific wheat ESTs identified orthologs for 80% sequences in rice and 71% in Arabidopsis . Rice orthologs were present on all rice chromosomes, although most (34%) were on rice chromosome 9 (R9). No single collinear region was identified in Arabidopsis even for a smaller region, such as the Ph1 gene region. Seven of the nine Ph1 gene region markers mapped within a 450-kb region on R9 with the same gene order. Detailed domain/motif analysis of the 91 putative genes present in the 450-kb region identified 26 candidates for the Ph1 gene, including genes involved in chromatin reorganization, microtubule attachment, acetyltransferases, methyltransferases, DNA binding, and meiosis/anther specific proteins. Five of these genes shared common domains/motifs with the meiosis specific genes Zip1 , Scp1 , Cor1 , RAD50 , RAD51 , and RAD57 . Wheat and Arabidopsis homologs for these rice genes were identified.

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Distribution of genes and recombination in wheat and other eukaryotes

Cited by 33 publications

References 94 publications

Successful Gene Tagging in Lettuce Using the Tnt1 Retrotransposon from Tobacco

Successful Gene Tagging in Lettuce Using the Tnt1 Retrotransposon from Tobacco

Detailed Recombination Studies Along Chromosome 3B Provide New Insights on Crossover Distribution in Wheat (Triticum aestivum L.)

Fine structure mapping of a gene-rich region of wheat carrying Ph1 , a suppressor of crossing over between homoeologous chromosomes

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