ArticleBMC genomics2009
A BAC-based physical map of Brachypodium distachyon and its comparative analysis with rice and wheat.
Article in BMC genomics, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 29 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
29 citing papers in PubMed, 47 citations in OpenAlex.
- Ribosomal DNA localization on Lathyrus species chromosomes by FISH.Journal, genetic engineering & biotechnology · 2020Article
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- Features of the organization of bread wheat chromosome 5BS based on physical mapping.BMC genomics · 2018Article
- Advancing Eucalyptus Genomics: Cytogenomics Reveals Conservation of Eucalyptus Genomes.Frontiers in plant science · 2016Article
- Synteny analysis in Rosids with a walnut physical map reveals slow genome evolution in long-lived woody perennials.BMC genomics · 2015Article
- Genetic and physical mapping of powdery mildew resistance gene MlHLT in Chinese wheat landrace Hulutou.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2015Article
- Cassava genome from a wild ancestor to cultivated varieties.Nature communications · 2014Article
- Integrated physical, genetic and genome map of chickpea (Cicer arietinum L.).Functional & integrative genomics · 2014Article
- The Spirodela polyrhiza genome reveals insights into its neotenous reduction fast growth and aquatic lifestyle.Nature communications · 2014Article
- Description of durum wheat linkage map and comparative sequence analysis of wheat mapped DArT markers with rice and Brachypodium genomes.BMC genetics · 2013Article
- Conserved synteny-based anchoring of the barley genome physical map.Functional & integrative genomics · 2013Article
- A 4-gigabase physical map unlocks the structure and evolution of the complex genome of Aegilops tauschii, the wheat D-genome progenitor.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Integrated consensus genetic and physical maps of flax (Linum usitatissimum L.).TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2012Article
- Genome physical mapping of polyploids: a BIBAC physical map of cultivated tetraploid cotton, Gossypium hirsutum L.PloS one · 2012Article
- Cell wall composition throughout development for the model grass Brachypodium distachyon.Frontiers in plant science · 2012Article
- Characterizing the walnut genome through analyses of BAC end sequences.Plant molecular biology · 2012Article
- Generation and characterization of the Western Regional Research Center Brachypodium T-DNA insertional mutant collection.PloS one · 2012Article
- Advances in BAC-based physical mapping and map integration strategies in plants.Journal of biomedicine & biotechnology · 2012Review
- Article
- A comparative physical map reveals the pattern of chromosomal evolution between the turkey (Meleagris gallopavo) and chicken (Gallus gallus) genomes.BMC genomics · 2011Article
Corrections and comments
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Authors and funding
11 authors at 4 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundBrachypodium distachyon (Brachypodium) has been recognized as a new model species for comparative and functional genomics of cereal and bioenergy crops because it possesses many biological attributes desirable in a model, such as a small genome size, short stature, self-pollinating habit, and short generation cycle. To maximize the utility of Brachypodium as a model for basic and applied research it is necessary to develop genomic resources for it. A BAC-based physical map is one of them. A physical map will facilitate analysis of genome structure, comparative genomics, and assembly of the entire genome sequence.
resultsA total of 67,151 Brachypodium BAC clones were fingerprinted with the SNaPshot HICF fingerprinting method and a genome-wide physical map of the Brachypodium genome was constructed. The map consisted of 671 contigs and 2,161 clones remained as singletons. The contigs and singletons spanned 414 Mb. A total of 13,970 gene-related sequences were detected in the BAC end sequences (BES). These gene tags aligned 345 contigs with 336 Mb of rice genome sequence, showing that Brachypodium and rice genomes are generally highly colinear. Divergent regions were mainly in the rice centromeric regions. A dot-plot of Brachypodium contigs against the rice genome sequences revealed remnants of the whole-genome duplication caused by paleotetraploidy, which were previously found in rice and sorghum. Brachypodium contigs were anchored to the wheat deletion bin maps with the BES gene-tags, opening the door to Brachypodium-Triticeae comparative genomics.
conclusionThe construction of the Brachypodium physical map, and its comparison with the rice genome sequence demonstrated the utility of the SNaPshot-HICF method in the construction of BAC-based physical maps. The map represents an important genomic resource for the completion of Brachypodium genome sequence and grass comparative genomics. A draft of the physical map and its comparisons with rice and wheat are available at http://phymap.ucdavis.edu/brachypodium/.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.