Mining for genes related to pistil abortion in <i>Prunus sibirica</i> L.

Chen, Jianhua; Zhang, Jian; Liu, Quangang; Wang, Xinxin; Wen, Jiaxing; Sun, Yongqiang; Dong, Shuying

doi:10.7717/peerj.14366

Cited by 3 publications

(2 citation statements)

References 53 publications

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“…One of the most important tree species for the afforestation of barren mountains that can contribute to improving the environment by controlling various factors such as wind, sand, and water conservation [ 20 ]. P. sibirica seeds have rich economic value and are used in many areas including food, medicine, and industry [ 21 ]. However, frost damage during flowering limits the development of the P. sibirica industry.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide identification and analysis of the WRKY gene family and low-temperature stress response in Prunus sibirica

et al. 2023

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Background WRKY transcription factors are a prominent gene family in plants, playing a crucial role in various biological processes including development, metabolism, defense, differentiation, and stress response. Although the WRKY gene family has been extensively studied and analysed in numerous plant species, research on Prunus sibirica’s WRKY genes (PsWRKY) remains lacking. Results This study analysed the basic physicochemical properties, phylogeny, gene structure, cis-acting elements, and Gene ontology (GO) annotation of PsWRKY gene family members using bioinformatics methods based on the whole-genome data of P. sibirica. In total, 55 WRKYs were identified in P. sibirica and were heterogeneously distributed on eight chromosomes. Based on the phylogenetic analysis, these WRKYs were classified into three major groups: Group I, Group II (II-a, II-b, II-c, II-d, II-e), and Group III. Members of different subfamilies have different cis-acting elements, conserved motifs, and intron-exon structures, indicating functional heterogeneity of the WRKY family. Prediction of subcellular localisation indicated that PsWRKYs were mainly located in the nucleus. Twenty pairs of duplicated genes were identified, and segmental duplication events may play an important role in PsWRKY gene family expansion. Analysis of the Ka/Ks ratio showed that the PsWRKY family’s homologous genes were primarily purified by selection. Additionally, GO annotation analysis showed that the WRKY gene family was mainly involved in responses to stimuli, immune system processes, and reproductive processes. Furthermore, quantitative real-time PCR (qRT-PCR) analysis showed that 23 PsWRKYs were highly expressed in one or more tissues (pistils and roots) and PsWRKYs showed specific expression patterns under different low-temperature stress conditions. Conclusions Our results provide a scientific basis for the further exploration and functional validation of WRKYs in P. sibirica.

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Section: Introductionmentioning

confidence: 99%

Genome-wide identification and analysis of the WRKY gene family and low-temperature stress response in Prunus sibirica

et al. 2023

Self Cite

View full text Add to dashboard Cite

show abstract

“…One of the most important tree species for the afforestation of barren mountains that can contribute to improving the environment by controlling various factors such as wind, sand, and water conservation [20]. P. sibirica seeds have rich economic value and are used in many areas including food, medicine, and industry [21]. However, frost damage during owering limits the development of the P. sibirica industry.…”

mentioning

confidence: 99%

Genome-wide identification and analysis of the WRKY gene family and low-temperature stress response in Prunus sibirica

Liu

Wang

Wen

et al. 2023

Preprint

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Background: WRKY transcription factors are a prominent gene family in plants, playing a crucial role in various biological processes including development, metabolism, defense, differentiation, and stress response. Although the WRKY gene family has been extensively studied and analysed in numerous plant species, research on Prunus sibirica's WRKYgenes (PsWRKY) remains lacking. Results: This study analysed the basic physicochemical properties, phylogeny, gene structure, cis-acting elements, and Gene ontology (GO) annotation of PsWRKY gene family members using bioinformatics methods based on the whole-genome data of P. sibirica. In total, 55 WRKYswere identified in P. sibirica and were heterogeneously distributed on eight chromosomes. Based on the phylogenetic analysis, these WRKYs were classified into three major groups: Group I, Group II (II-a, II-b, II-c, II-d, II-e), and Group III. Members of different subfamilies have different cis-acting elements, conserved motifs, and intron-exon structures, indicating functional heterogeneity of the WRKY family. Prediction of subcellular localisation indicated that PsWRKYs were mainly located in the nucleus. Twenty pairs of duplicated genes were identified, and segmental duplication events may play an important role in PsWRKY gene family expansion. Analysis of the Ka/Ks ratio showed that the PsWRKY family's homologous genes were primarily purified by selection. Additionally, GO annotation analysis showed that the WRKY gene family was mainly involved in responses to stimuli, immune system processes, and reproductive processes. Furthermore, quantitative real-time PCR (qRT-PCR) analysis showed that 23 PsWRKYswere highly expressed in one or more tissues (pistils and roots) and PsWRKYs showed specific expression patterns under different low-temperature stress conditions. Conclusions: Our results provide a scientific basis for the further exploration and functional validation of WRKYs in P. sibirica.

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Identification of an Aux/IAA regulator for flesh firmness using combined GWAS and bulked segregant RNA-Seq analysis in watermelon

Anees,

Zhu,

Umer

et al. 2024

Horticultural Plant Journal

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Mining for genes related to pistil abortion in Prunus sibirica L.

Cited by 3 publications

References 53 publications

Genome-wide identification and analysis of the WRKY gene family and low-temperature stress response in Prunus sibirica

Genome-wide identification and analysis of the WRKY gene family and low-temperature stress response in Prunus sibirica

Genome-wide identification and analysis of the WRKY gene family and low-temperature stress response in Prunus sibirica

Identification of an Aux/IAA regulator for flesh firmness using combined GWAS and bulked segregant RNA-Seq analysis in watermelon

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