Identification of OSCA gene family in Solanum habrochaites and its function analysis under stress

Miao, Shuang; Li, Fengshuo; Han, Yang; Yao, Zhongtong; Xu, Zeqian; Chen, Xiuling; Liu, Jiayin; Zhang, Yao; Wang, Aoxue

doi:10.1186/s12864-022-08675-6

Cited by 12 publications

(16 citation statements)

References 58 publications

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“…Generally, the subcellular localization helps to decipher its cellular function. Previous studies have reported that OSCA proteins were localized in the cell membrane in other plants [ 18 , 45 ]. In the current study, both the in silico prediction and the subcellular localization results indicated that the HvOSCA family members are localized in the inner-membrane.…”

Section: Discussionmentioning

confidence: 99%

Genome-Wide Identification, Evolution and Expressional Analysis of OSCA Gene Family in Barley (Hordeum vulgare L.)

Kuijun

Pan

Yan

et al. 2022

IJMS

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The hyperosmolality-gated calcium-permeable channel gene family (OSCA) is one kind of conserved osmosensors, playing a crucial role in maintaining ion and water homeostasis and protecting cellular stability from the damage of hypertonic stress. Although it has been systematically characterized in diverse plants, it is necessary to explore the role of the OSCA family in barley, especially its importance in regulating abiotic stress response. In this study, a total of 13 OSCA genes (HvOSCAs) were identified in barley through an in silico genome search method, which were clustered into 4 clades based on phylogenetic relationships with members in the same clade showing similar protein structures and conserved motif compositions. These HvOSCAs had many cis-regulatory elements related to various abiotic stress, such as MBS and ARE, indicating their potential roles in abiotic stress regulation. Furthermore, their expression patterns were systematically detected under diverse stresses using RNA-seq data and qRT-PCR methods. All of these 13 HvOSCAs were significantly induced by drought, cold, salt and ABA treatment, demonstrating their functions in osmotic regulation. Finally, the genetic variations of the HvOSCAs were investigated using the re-sequencing data, and their nucleotide diversity in wild barley and landrace populations were 0.4966 × 10−3 and 0.391 × 10−3, respectively, indicating that a genetic bottleneck has occurred in the OSCA family during the barley evolution process. This study evaluated the genomic organization, evolutionary relationship and genetic expression of the OSCA family in barley, which not only provides potential candidates for further functional genomic study, but also contributes to genetically improving stress tolerance in barley and other crops.

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Section: Discussionmentioning

confidence: 99%

Genome-Wide Identification, Evolution and Expressional Analysis of OSCA Gene Family in Barley (Hordeum vulgare L.)

Kuijun

Pan

Yan

et al. 2022

IJMS

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“…Plants have evolved complex signal transductions and stress resistance mechanisms to survive the harsh weather conditions of the external environmental [2,4]. The OSCA genes induce the increase in the Ca 2+ concentration in the cytoplasm during hyperosmotic stress, which is an essential response mechanism of plants to drought and salt-induced osmotic stress [7,12,15]. The OSCA gene family members in plants that carry the DUF221 domain have been identified in plants such as: A. thaliana [7], O. sativa [11], Z. mays [30], V. radiata [12], and P. trichocarpa [13].…”

Section: Discussionmentioning

confidence: 99%

“…To understand the functional characteristics and evolutionary relationship of the OSCA gene family in L. chinense, a phylogenetic tree was constructed using the full-length sequences of the OSCA proteins in L. chinense (11), A. thaliana (15), O. sativa (11), and P. trichocarpa (17). Based on the phylogenetic tree, the OSCA proteins can be divided into four subgroups (Clade 1-4) (Figure 3).…”

Section: Phylogenetic Analysis and Classification Of L Chinense Osca ...mentioning

confidence: 99%

“…The overexpression of ZmOSCA2.4 in A. thaliana significantly enhanced the drought resistance and reduced the expression of aging-related genes [14]. In tomato (Solanum habrochaites), all SIOSCAs respond to drought, and they respond to low temperature through the ABA signaling pathway [15]. GmOSCA3.2, expressed in soybean (Glycine max Merrill), showed an increased flower, leaf, and root growth under drought stress.…”

Section: Introductionmentioning

confidence: 99%

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OSCA Genes in Liriodendron chinense: Characterization, Evolution and Response to Abiotic Stress

Hwarari

et al. 2022

Forests

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The hyperosmolality-gated calcium-permeable channels (OSCA) play an imperative role in the plant response to environmental stresses. Moreover, their characteristics in the ornamental woody plant Liriodendron chinense, widely dispersed in the southern region of China, is yet to be elucidated. In the present study, 399 OSCA proteins were identified from 31 plant genomes, and comparative phylogenetic analysis revealed that LchiOSCAs gene family is closely related to the Magnolia Cinnamomum kanehirae OSCAs. In L. chinense, 11 LchiOSCA genes were identified and distributed across eight chromosomes. Additionally, phylogenetic analysis of LchiOSCAs exhibited a classification into four subfamilies based on the tree arrangement, similarity in the gene structures, and conserved motif numbers and order. Gene duplication investigations were biased towards the tandem duplication events, accounting for 36% (4/11) of the LchiOSCA gene family. The interspecies collinearity analysis revealed a closer relationship between the L. chinense OSCAs and the P. trichocarpa OSCAs. Analysis in promoter regions of the LchiOSCAs showed the presence of multiple phytohormones and stress responsive elements. Specifically, the ABA-responsive elements had the greatest representation. 3D protein structures of the modeled L. chinense OSCAs exhibited a high homology with the template structures, providing a better understanding of LchiOSCAs’ functionality at the proteome level. The expression pattern analysis of LchiOSCAs based on the transcriptome data and qRT-PCR in L. chinense leaves showed differential responses to drought, cold, and heat stress at varying degrees. Specifically, LchiOSCA2 and LchiOSCA4 were highly expressed under the three abiotic stresses. This research will provide valuable resources and further the understanding of plant OSCA genes in L. chinense for agronomic breeding and bio-engineering purposes.

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“…OSCA family genes have been studied in a variety of plants and found to play potential roles in plant stress resistance ( Li et al, 2015 ; Yin et al, 2021 ; Tong et al, 2021 ; Miao et al, 2022 ). Following the publication of the genomes of the sunflower and other Compositae plants, the evolution of this gene family in Compositae has not been systematically studied.…”

Section: Introductionmentioning

confidence: 99%

Evolutionary analysis of the OSCA gene family in sunflower (Helianthus annuus L) and expression analysis under NaCl stress

Shan

Wu²,

Du³

et al. 2023

PeerJ

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Hyperosmolality-gated calcium-permeable channels (OSCA) are Ca2 + nonselective cation channels that contain the calcium-dependent DUF221 domain, which plays an important role in plant response to stress and growth. However, the OSCA gene has not been fully identified and analyzed in sunflowers. In this study, we comprehensively analyzed the number, structure, collinearity, and phylogeny of the OSCA gene family in the sunflower, six Compositae species (Arctium lappa, Chrysanthemum morifolium, Cichorium endivia, Cichorium intybus, Lactuca sativa var. Angustata, and Carthamus tinctorius), and six other plants (soybean, Arabidopsis thaliana, rice, grape, and maize). The expression of the sunflower OSCA gene in nine different tissues, six different hormones, and NaCl stress conditions were analyzed based on transcriptome data and qRT–PCR. A total of 15 OSCA proteins, distributed on 10 chromosomes, were identified in the sunflower, and all of them were located in the endoplasmic reticulum. Using the phylogenetic tree, collinearity, gene structure, and motif analysis of the six Compositae species and six other plants, we found that the sunflower OSCA protein had only three subfamilies and lacked the Group 4 subfamily, which is conserved in the evolution of Compositae and subject to purification selection. The OSCA gene structure and motif analysis of the sunflower and six Compositae showed that there was a positive correlation between the number of motifs of most genes and the length of the gene, different subfamilies had different motifs, and the Group 4 subfamily had the smallest number of genes and the simplest gene structure. RNA-seq and qRT–PCR analysis showed that the expression levels of most OSCA genes in the sunflower changed to varying degrees under salt stress, and HaOSCA2.6 and HaOSCA3.1 were the most important in the sunflower’s response to salt stress. The coexpression network of the sunflower genes under salt stress was constructed based on weighted gene co-expression network analysis (WGCNA). In conclusion, our findings suggest that the OSCA gene family is conserved during the sunflower’s evolution and plays an important role in salt tolerance. These results will deepen our understanding of the evolutionary relationship of the sunflower OSCA gene family and provide a basis for their functional studies under salt stress.

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Identification of OSCA gene family in Solanum habrochaites and its function analysis under stress

Cited by 12 publications

References 58 publications

Genome-Wide Identification, Evolution and Expressional Analysis of OSCA Gene Family in Barley (Hordeum vulgare L.)

Genome-Wide Identification, Evolution and Expressional Analysis of OSCA Gene Family in Barley (Hordeum vulgare L.)

OSCA Genes in Liriodendron chinense: Characterization, Evolution and Response to Abiotic Stress

Evolutionary analysis of the OSCA gene family in sunflower (Helianthus annuus L) and expression analysis under NaCl stress

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