Genome-wide analysis of the family 1 glycosyltransferases in cotton

Abstract

Family 1 GT, designated as UGT, is the largest and most functionally important multigene family in the plant kingdom. In this study, we carried out a genome-wide identification, analysis, and comparison of 142, 146, and 196 putative UGTs from Gossypium raimondii, Gossypium arboreum, and Gossypium hirsutum, respectively. All members present the 44 amino-acid conserved consensus sequence termed the plant secondary product glycosyltransferase motif. According to the phylogenetic relationship among the cotton UGT proteins and those from other species, GrUGTs and GaUGTs could be classified into 16 major phylogenetic groups (A-P), whereas GhUGTs are classified into 15 major phylogenetic groups with a lack of group C. All cotton UGTs are dispersed throughout the chromosomes and are displayed in clusters with the same open reading frame orientation. The expansion of them appears to result from genome duplication and rearrangement. Two conserved introns, A and B, are detected in most of the intron-containing-UGTs in G. raimondii and G. arboreum, whereas only intron A is detected in the intron-containing-UGTs in G. hirsutum. Furthermore, expression patterns of the UGT genes in G. hirsutum wild type and its near isogenic fuzzless-lintless mutant at the stage of fiber initiation were analyzed using the RNA-seq data. Overall, this study not only deepens our understanding of the structure, phylogeny, evolution, and expression of cotton UGT genes, but also provides a solid foundation for further cloning and functional studies of the UGT family genes.

The genome of the medicinal plant Andrographis paniculata provides insight into the biosynthesis of the bioactive diterpenoid neoandrographolide

“…that are more than 250 amino acids in length) (Table S15). Although this is less than the number of characterized UGT genes in Arabidopsis thaliana (120), Medicago truncatula (187), Cypripedium arietinum (125), Glycine max (242), Gossypium hirsutum (196) and Lotus japonicus (188) (Yonekura‐Sakakibara and Hanada, ; Huang et al ., ; Yin et al ., ), it may reflect less glycoslation in this plant species or the incomplete nature of the draft genome assembly. The full‐length A. paniculata UGT genes were named based on the accepted naming convention for signature PSPG motifs (http://prime.vetmed.wsu.edu/resources/udp-glucuronsyltransferase-homepage) (Mackenzie et al ., ).…”

Phylogenomic analysis of UDP‐dependent glycosyltransferases provides insights into the evolutionary landscape of glycosylation in plant metabolism

“…The phylogenetic distribution of putative and functionally characterized UGTs has thus far been analyzed in a total of 27 plant genera with fully sequenced genomes, including one chlorophycean algae ( Chlamydomonas reinhardtii ), one bryophyte ( Physcomitrella patens ), one lycophyte ( Selaginella moellendorffii ) and 24 angiosperms (Li et al ., ; Yonekura‐Sakakibara and Hanada, ; Barvkar et al ., ; Caputi et al ., ; Schweiger et al ., ; Li et al ., ; Huang et al ., ; Wu et al ., ; Xu et al ., ; Yu et al ., ; He et al ., ; Rehman et al ., ; Cheng et al ., ; Song et al ., ; Sun et al ., ; Figure ; Table ). In the two analyses with the largest datasets, 12 and 16 genera were examined, respectively, and identified groups O and P UGTs that are absent in A. thaliana (Yonekura‐Sakakibara and Hanada, ; Caputi et al ., ).…”

Heterogeneous patterns of genetic variation at nuclear genes and quantitative traits in a Scots pine provenance trial

“…However, it is important to note that the Bonferroni correction is very conservative and therefore, a less powerful test for identifying correlations between SNP variations and quantitative traits that are shaped by small effects from many genes. Gene Pr1_19 is involved in glycosyltransferase functions related to biosynthesis of polysaccharides and glycoproteins in the plant cell wall [66], which have crucial roles in plant growth and responses to biotic and abiotic stresses [67][68][69][70]. Alternatively, gene Pr4_19 encodes enzymatic proteins from the laccases group involved in lignification in conifers [67].…”