Genome-wide identification of the MIOX gene family and their expression profile in cotton development and response to abiotic stress

Abstract

The enzyme myo-inositol oxygenase (MIOX) catalyzes the myo-inositol into glucuronic acid. In this study, 6 MIOX genes were identified from all of the three diploid cotton species (Gossypium arboretum, Gossypium herbaceum and Gossypium raimondii) and Gossypioides kirkii, 12 MIOX genes were identified from two domesticated tetraploid cottons Gossypium hirsutum, Gossypium barbadense, and 11 MIOX genes were identified from three wild tetraploid cottons Gossypium tomentosum, Gossypium mustelinum and Gossypium darwinii. The number of MIOX genes in tetraploid cotton genome is roughly twice that of diploid cotton genome. Members of MIOX family were classified into six groups based on the phylogenetic analysis. Integrated analysis of collinearity events and chromosome locations suggested that both whole genome duplication and segmental duplication events contributed to the expansion of MIOX genes during cotton evolution. The ratios of non-synonymous (Ka) and synonymous (Ks) substitution rates revealed that purifying selection was the main force driving the evolution of MIOX genes. Numerous cis-acting elements related to light responsive element, defense and stress responsive element were identified in the promoter of the MIOX genes. Expression analyses of MIOX genes based on RNA-seq data and quantitative real time PCR showed that MIOX genes within the same group shared similar expression patterns with each other. All of these results provide the foundation for further study of the biological functions of MIOX genes in cotton environmental adaptability.

Identification of the Golden-2-like transcription factors gene family in Gossypium hirsutum

“…Cotton is an important fiber and oil crop in the world, but its development is always threatened by abiotic stresses, including extreme temperature, drought and salt ( Zhang et al, 2018 ; Li et al, 2021 ). These stresses will become more severe in the future, which will lead to lower crop yields and quality ( Onaga & Wydra, 2016 ).…”

Genome-Wide Identification and Expression Analysis Elucidates the Potential Role of PFK Gene Family in Drought Stress Tolerance and Sugar Metabolism in Cotton

“…These species are divided into groups of nearly related species arranged “A-G″ and “K” for diploids and “AD” for tetraploids, and they could provide biotic and abiotic stress tolerance. ( Wendel and Grover, 2015 ; Li et al, 2021 ). In this study, we used G. arboreum and G. raimondii from the diploid species category of A and D genomes and G. barbadense and G. hirsutum , belonging to the AD-genome tetraploid category ( Zhang et al, 2008 ).…”

Aonchotheca (Nematoda: Capillariidae) is validated as a separated genus from Capillaria by both mitochondrial and nuclear ribosomal DNA

“…Generally, the ratio of Ka/Ks being > 1 represents rapid evolution of a protein gene and a positive selection and changes in protein’s functions. In contrast, < 1 indicates a negative selection and selectively purified among genes [ 42 , 43 ]. In the present study, the Ka/Ks ratios of the genes atp 6, cox 3, nad 3, nad 4 and nad 6 ranged from 1.07 to 1.72 (Fig.…”