Genetic and Functional Genomics Insights into the Genetic Improvement of Stress Resistance in Economic Crops

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Plant Genetics and Genomics".

Deadline for manuscript submissions: 20 December 2025 | Viewed by 573

Special Issue Editors

Institute of Integrative Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou 221116, China
Interests: sweet potato; salt tolerance; transcription factors; regulatory mechanisms
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Guest Editor
Institute of Integrative Plant Biology, School of Life Sciences, Jiangsu Normal University, Xuzhou 221116, China
Interests: sweet potato; salt tolerance; transcription factors; regulatory mechanisms

Special Issue Information

Dear Colleagues,

Economic crops, such as soybean, cotton, rape, and sweet potato hold pivotal importance in global agricultural economies by driving income generation, industrial development, and sustainable livelihoods. Some economic crops, such as sweet potato, also play a key role as staple crops, especially in developing countries. Dramatic increases in population, decreases in arable land, and harsh environmental conditions have brought superimposed serious challenges to global food and energy supplies. Complicated environmental conditions such as drought, salinity, cold and biotic stress seriously affect the growth and yield of various economic crops. Genetic improvement emerges as a critical solution; leveraging genomic tools to develop stress-resilient cultivars can remarkably reduce yield losses and enhance nutritional quality. This Special Issue in Genes aims to integrate recent attempts to make progress in economic crops by expanding knowledge in various fields, such as genetics, molecular biology, functional genomics, biotic and abiotic stress responses, and omics studies, etc.

Dr. Mingku Zhu
Dr. Xiaoqing Meng
Guest Editors

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Keywords

  • economic crops
  • functional genomics
  • molecular biology
  • genetic improvement
  • agricultural biotechnology

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Published Papers (1 paper)

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Research

28 pages, 5315 KiB  
Article
Integrated Transcriptome and Metabolome Analysis Provides Insights into the Low-Temperature Response in Sweet Potato (Ipomoea batatas L.)
by Zhenlei Liu, Jiaquan Pan, Sitong Liu, Zitong Yang, Huan Zhang, Tao Yu and Shaozhen He
Genes 2025, 16(8), 899; https://doi.org/10.3390/genes16080899 - 28 Jul 2025
Viewed by 425
Abstract
Background/Objectives: Sweet potato is a tropical and subtropical crop and its growth and yield are susceptible to low-temperature stress. However, the molecular mechanisms underlying the low temperature stress of sweetpotato are unknown. Methods: In this work, combined transcriptome and metabolism analysis was employed [...] Read more.
Background/Objectives: Sweet potato is a tropical and subtropical crop and its growth and yield are susceptible to low-temperature stress. However, the molecular mechanisms underlying the low temperature stress of sweetpotato are unknown. Methods: In this work, combined transcriptome and metabolism analysis was employed to investigate the low-temperature responses of two sweet potato cultivars, namely, the low-temperature-resistant cultivar “X33” and the low-temperature-sensitive cultivar “W7”. Results: The differentially expressed metabolites (DEMs) of X33 at different time stages clustered in five profiles, while they clustered in four profiles of W7 with significant differences. Differentially expressed genes (DEGs) in X33 and W7 at different time points clustered in five profiles. More DEGs exhibited continuous or persistent positive responses to low-temperature stress in X33 than in W7. There were 1918 continuously upregulated genes and 6410 persistent upregulated genes in X33, whereas 1781 and 5804 were found in W7, respectively. Core genes involved in Ca2+ signaling, MAPK cascades, the reactive oxygen species (ROS) signaling pathway, and transcription factor families (including bHLH, NAC, and WRKY) may play significant roles in response to low temperature in sweet potato. Thirty-one common differentially expressed metabolites (DEMs) were identified in the two cultivars in response to low temperature. The KEGG analysis of these common DEMs mainly belonged to isoquinoline alkaloid biosynthesis, phosphonate and phosphinate metabolism, flavonoid biosynthesis, cysteine and methionine metabolism, glycine, serine, and threonine metabolism, ABC transporters, and glycerophospholipid metabolism. Five DEMs with identified Kyoto Encyclopedia of Genes and Genomes (KEGG) pathways were selected for correlation analysis. KEGG enrichment analysis showed that the carbohydrate metabolism, phenylpropanoid metabolism, and glutathione metabolism pathways were significantly enriched and played vital roles in low-temperature resistance in sweet potato. Conclusions: These findings contribute to a deeper understanding of the molecular mechanisms underlying plant cold tolerance and offer targets for molecular breeding efforts to enhance low-temperature resistance. Full article
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