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E.g., Wessler, regeneration, PubMed ID 17578919.

expand all sections collapse all sections  Reference "How to usefully compare homologous plant genes and chromosomes as DNA sequences"
Reference ID 30837
Title How to usefully compare homologous plant genes and chromosomes as DNA sequences
Source The Plant journal : for cell and molecular biology, 2008, vol. 53, pp. 661-673
Authors (2)
Abstract There are four sequenced and publicly available plant genomes to date. With many
more slated for completion, one challenge will be to use comparative genomic
methods to detect novel evolutionary patterns in plant genomes. This research
requires sequence alignment algorithms to detect regions of similarity within
and among genomes. However, different alignment algorithms are optimized for
identifying different types of homologous sequences. This review focuses on
plant genome evolution and provides a tutorial for using several sequence
alignment algorithms and visualization tools to detect useful patterns of
conservation: conserved non-coding sequences, false positive noise,
subfunctionalization, synteny, annotation errors, inversions and local
duplications. Our tutorial encourages the reader to experiment online with the
reviewed tools as a companion to the text.
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