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The Sorghum bicolor genome and the diversification of grasses
An initial analysis of the ∼730-megabase Sorghum bicolor (L.) Moench genome is presented, placing ∼98% of genes in their chromosomal context using whole-genome shotgun sequence validated by genetic, physical and syntenic information.
The genome of the mesopolyploid crop species Brassica rapa
- Xiaowu Wang, Han-zhong Wang, +106 authors Zhonghua Zhang
- Biology, MedicineNature Genetics
- 1 October 2011
The annotation and analysis of the draft genome sequence of Brassica rapa accession Chiifu-401-42, a Chinese cabbage, and used Arabidopsis thaliana as an outgroup for investigating the consequences of genome triplication, such as structural and functional evolution.
MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearity
- Yupeng Wang, Haibao Tang, +9 authors A. Paterson
- Biology, MedicineNucleic acids research
- 4 January 2012
The MCScanX toolkit implements an adjusted MCScan algorithm for detection of synteny and collinearity that extends the original software by incorporating 14 utility programs for visualization of results and additional downstream analyses.
Ancient polyploidization predating divergence of the cereals, and its consequences for comparative genomics.
- A. Paterson, J. Bowers, B. Chapman
- Biology, MedicineProceedings of the National Academy of Sciences…
- 29 June 2004
Integration of structural genomic data from a largely assembled rice genome sequence, with phylogenetic analysis of sequence samples for many other taxa, suggests that a polyploidization event…
The tomato genome sequence provides insights into fleshy fruit evolution
A high-quality genome sequence of domesticated tomato is presented, a draft sequence of its closest wild relative, Solanum pimpinellifolium, is compared, and the two tomato genomes are compared to each other and to the potato genome.
Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome
The polyploid genome of Brassica napus, which originated from a recent combination of two distinct genomes approximately 7500 years ago and gave rise to the crops of rape oilseed, is sequenced.
Unravelling angiosperm genome evolution by phylogenetic analysis of chromosomal duplication events
It is shown that a genome-wide duplication post-dates the divergence of Arabidopsis from most dicots, and that additional, more ancient duplication events affect more distant taxonomic comparisons.
Resolution of quantitative traits into Mendelian factors by using a complete linkage map of restriction fragment length polymorphisms
- A. Paterson, E. Lander, J. Hewitt, Susan Peterson, S. Lincoln, S. Tanksley
- Biology, MedicineNature
- 20 October 1988
The first use of a complete RFLP linkage map to resolve quantitative traits into discrete Mendelian factors, in an interspecific back-cross of tomato is reported, broadly applicable to the genetic dissection of quantitative inheritance of physiological, morphological and behavioural traits in any higher plant or animal.
Sequence and comparative analysis of the chicken genome provide unique perspectives on vertebrate evolution
A draft genome sequence of the red jungle fowl, Gallus gallus, provides a new perspective on vertebrate genome evolution, while also improving the annotation of mammalian genomes.
An SNP resource for rice genetics and breeding based on subspecies indica and japonica genome alignments.
- F. Feltus, Jun Wan, S. Schulze, J. Estill, N. Jiang, A. Paterson
- Biology, MedicineGenome research
- 1 September 2004
Dense coverage of the rice genome with polymorphic DNA markers is an invaluable tool for DNA marker-assisted breeding, positional cloning, and a wide range of evolutionary studies. We have aligned…