An analysis of lncRNAs related to fiber quality and the discovery of their target genes in a Gossypium hirsutum line with Gossypium mustelinum introgression

Wang, Baohua; Ji, Meijun; Fang, Hui; Gu, Haijing; Mehari, Teame Gereziher; Han, Jinlei; Feng, Wenxiang; Huo, Xuehan; Zhang, Jingxia; Chen, Yu; Zhang, Jun; Ditta, Allah; Khan, Muhammad K. R.; Paterson, Andrew H.; Chee, Peng W.; Wang, Kai

doi:10.1007/s00122-024-04541-z

Cited by 1 publication

(1 citation statement)

References 49 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Figure 3 showed more examples of snoRNA methylation differences indicating that some snoRNA genes with statistically significant different methylation levels could be potentially used as biomarkers to identify specific events such as grafting. For instance, Wang et al ( 2024 ) reported that expressions of some noncoding RNAs were related with fiber strength, fiber uniformity and fiber fineness in cotton.…”

Section: Discussionmentioning

confidence: 99%

Grafting based DNA methylation alteration of snoRNAs in upland cotton (Gossypium L.)

Karaca,

Ince

2024

Physiol Mol Biol Plants

View full text Add to dashboard Cite

The effects of grafting in response to various biotic and abiotic stressors have been studied, however, the methylation status of small nucleolar RNA (snoRNA) genes in heterograft and homograft cotton needs investigation. This study was undertaken to determine grafting effects on DNA methylation of snoRNA genes in Upland cotton. Rootstocks used were Pima 3–79 (Gossypium barbadense acc. Pima 3–79) and Texas Marker-1 (G. hirsutum acc. TM-1), representing two different species with different fiber properties, adaptations, and morphologies. The methylation ratio and differently methylated cytosines (DMCs) of 10935 snoRNA genes in mature seeds of heterograft and homograft cotton samples were studied using the whole genome bisulfite sequencing method. Seedling vigor and seed weight were studied to investigate phenotype alterations that might be associated with altered methylation levels among grafts. Statistically significant DMC differences among gene elements of snoRNA genes and between homograft and heterograft cotton samples were identified in the absence of DNA sequence alterations. DNA methylation alterations of snoRNA genes associated with seedling vigor and 100 seed weight. The majority of snoRNA genes showed higher numbers of mCG + mCHG-DMCs with increased methylation levels in heterograft, while there were higher numbers of mCG + mCHG-DMCs with decreased methylation levels in homograft. Since snoRNAs regulate essential genes for plant growth and development and plant adaptation to different habitats or extreme environments, their altered methylation levels should be related with plant physiology.

show abstract

Section: Discussionmentioning

confidence: 99%