Genome-wide analysis of VPE family in four Gossypium species and transcriptional expression of VPEs in the upland cotton seedlings under abiotic stresses
- 21 January 2022
- journal article
- research article
- Published by Springer Science and Business Media LLC in Functional & Integrative Genomics
- Vol. 22 (2), 179-192
- https://doi.org/10.1007/s10142-021-00818-4
Abstract
Vacuolar processing enzymes (VPEs) play important roles in plant development, programmed cell death, and the responsiveness to biotic and abiotic stresses. To characterize the VPEs in upland cotton (Gossypium hirsutum), the VPE gene family within four Gossypium species, consisting of G. hirsutum, G. barbadense, G. arboreum, and G. raimondii, together with Arabidopsis thaliana, was comparatively analyzed at the genome-wide level. As a result, a total of 43 VPEs were identified, including 13 GhVPEs, 12 GbVPEs, 7 GaVPEs, and 7 GrVPEs, which are evenly distributed with one gene on a chromosome from four Gossypium species, respectively. The phylogenetic tree showed that the identified VPEs within the four Gossypium species could be categorized into β-type, δ-type, and γ-type VPE clades. Collinearity analysis presented 36 of intraspecies VPE-pairs and 152 of interspecies VPE-pairs, respectively, which are included in synteny blocks on chromosome. These results indicate that VPE duplication events have accorded well with the whole genome duplication. And expression profiles of GhVPEs in G. hirsutum seedlings demonstrated that the GhVPEs from the same clade are not necessarily identical in the pattern of transcriptional expression. Upon abiotic stresses (i.e., waterlogging and salt treatments), three GhVPEs (i.e., Ghir_A05G004610, Ghir_A09G011870, and Ghir_D09G011410) were significantly upregulated in their expression amounts, respectively. The GhVPE genes that presented inducible expression under some abiotic stresses may be applied to the improvement of resilience to abiotic stresses for the cultivated cottons.Keywords
This publication has 42 references indexed in Scilit:
- Bacillus subtilis genome editing using ssDNA with short homology regionsNucleic Acids Research, 2012
- Release of Apical Dominance in Potato Tuber Is Accompanied by Programmed Cell Death in the Apical Bud MeristemPlant Physiology, 2012
- MCScanX: a toolkit for detection and evolutionary analysis of gene synteny and collinearityNucleic Acids Research, 2012
- Development of maternal seed tissue in barley is mediated by regulated cell expansion and cell disintegration and coordinated with endosperm growthJournal of Experimental Botany, 2010
- FastTree 2 – Approximately Maximum-Likelihood Trees for Large AlignmentsPLOS ONE, 2010
- DnaSP v5: a software for comprehensive analysis of DNA polymorphism dataBioinformatics, 2009
- A Vacuolar Processing Enzyme, δVPE, Is Involved in Seed Coat Formation at the Early Stage of Seed DevelopmentTHE PLANT CELL ONLINE, 2005
- MUSCLE: multiple sequence alignment with high accuracy and high throughputNucleic Acids Research, 2004
- Vacuolar Processing Enzymes Are Essential for Proper Processing of Seed Storage Proteins in Arabidopsis thalianaOnline Journal of Public Health Informatics, 2003
- A unique vacuolar processing enzyme responsible for conversion of several proprotein precursors into the mature formsFEBS Letters, 1991