Identifying Gene Families Using Negative Selection Patterns
Author Information
Author(s): Frank Ronald L, Kandoth Cyriac, Ercal Fikret
Primary Institution: Missouri S&T
Hypothesis
Can a novel gene family identification method based on negative selection patterns accurately identify gene family members from EST data?
Conclusion
The NSP strategy effectively identifies specific gene family members in Arabidopsis using only EST data.
Supporting Evidence
- The NSP method uniquely identified family members in all the gene families tested.
- All ESTs from the representative contigs successfully identified the gene locus predicted.
- The method was validated by checking contigs against actual gene sequences.
Takeaway
Scientists created a new way to find related genes in plants using short DNA sequences, and it worked well for five different gene families.
Methodology
The NSP method was tested on five known gene families in Arabidopsis using EST data and dS/dN ratios to identify paralogs.
Limitations
The NSP strategy can only identify paralogs that exhibit purifying selection and may miss some gene families.
Digital Object Identifier (DOI)
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