comparative analysis of serinearginine-rich proteins across 27 eukaryotes insights into sub-family classification and extent of alternative splicing比较分析serinearginine-rich蛋白质在27个真核生物见解sub-family分类和可变剪接的程度.pdfVIP

Comparative Analysis of Serine/Arginine-Rich Proteins across 27 Eukaryotes: Insights into Sub-Family Classification and Extent of Alternative Splicing 1 2 2 2 4 4 Dale N. Richardson , Mark F. Rogers , Adam Labadorf , Asa Ben-Hur , Hui Guo , Andrew H. Paterson , Anireddy S. N. Reddy3* ¨ ¨ ¨ 1 Department of Bioinformatics and Population Genetics, Universitat zu Koln, Koln, Germany, 2 Computer Science Department, Colorado State University, Fort Collins, Colorado, United States of America, 3 Department of Biology, Program in Molecular Plant Biology, Program in Cell and Molecular Biology, Colorado State University, Fort Collins, Colorado, United States of America, 4 Plant Genome Mapping Laboratory, University of Georgia, Athens, Georgia, United States of America Abstract Alternative splicing (AS) of pre-mRNA is a fundamental molecular process that generates diversity in the transcriptome and proteome of eukaryotic organisms. SR proteins, a family of splicing regulators with one or two RNA recognition motifs (RRMs) at the N-terminus and an arg/ser-rich domain at the C-terminus, function in both constitutive and alternative splicing. We identified SR proteins in 27 eukaryotic species, which include plants, animals, fungi and ‘‘basal’’ eukaryotes that lie outside of these lineages. Using RNA recognition motifs (RRMs) as a phylogenetic marker, we classified 272 SR genes into robust sub-families. The SR gene family can be split into five major groupings, which can be further separated into 11 distinct sub-families. Most flowering plants have double or nearly double the number of SR genes found in vertebrates. The majority of plant SR g