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  • Open Access

    ARTICLE

    Identification and Molecular Characterization of the Alkaloid Biosynthesis Gene Family in Dendrobium catenatum

    Liping Yang1,#, Xin Wan2,3,#, Runyang Zhou1, Yingdan Yuan1,*

    Phyton-International Journal of Experimental Botany, Vol.93, No.1, pp. 81-96, 2024, DOI:10.32604/phyton.2023.045389

    Abstract As one of the main active components of Dendrobium catenatum, alkaloids have high medicinal value. The physicochemical properties, conserved domains and motifs, phylogenetic analysis, and cis-acting elements of the gene family members in the alkaloid biosynthesis pathway of D. catenatum were analyzed by bioinformatics, and the expression of the genes in different years and tissues was analyzed by qRT-PCR. There are 16 gene families, including 25 genes, in the D. catenatum alkaloid biosynthesis pathway. The analysis of conserved domains and motifs showed that the types, quantities, and orders of domains and motifs were similar among members of the same family,… More >

  • Open Access

    ARTICLE

    Protein Disulfide Isomerase and Its Potential Function on Endoplasmic Reticulum Quality Control in Diatom Phaeodactylum tricornutum

    Yanhuan Lin1,#, Hua Du2,#, Zhitao Ye2, Shuqi Wang2, Zhen Wang2, Xiaojuan Liu2,*

    Phyton-International Journal of Experimental Botany, Vol.93, No.1, pp. 137-150, 2024, DOI:10.32604/phyton.2023.044996

    Abstract PDI is a molecular chaperone and plays an important role in Endoplasmic Reticulum quality control (ERQC). PDI participates in the refolding of the misfolded/unfolded proteins to maintain cellular homeostasis under different stresses. However, bioinformatic characteristics and potential functions of PDIs in diatom Phaeodactylum tricornutum (Pt) are still unknown so far. Hence, the genome-wide characteristics of PtPDI proteins in P. tricornutum were first studied via bioinformatic and transcriptomic methods. 42 PtPDI genes were identified from the genome of P. tricornutum. The motif, protein structure, classification, number of introns, phylogenetic relationship, and the expression level of 42 PtPDI genes under the tunicamycin… More >

  • Open Access

    ARTICLE

    Effects of Heterologously Overexpressing PIP5K-Family Genes in Arabidopsis on Inflorescence Development

    Mingda Yin1,#, Rui Luo1,#, Tana Liang1, Qi Wen1, Xiaotian Liang1, Yanpeng Wen1, Xuemei Hu1, Zhiyan Wang1, Chang Gao1, Wenjing Ren1, Fenglan Huang1,2,3,4,5,*

    Phyton-International Journal of Experimental Botany, Vol.93, No.1, pp. 97-117, 2024, DOI:10.32604/phyton.2023.031228

    Abstract Castor is one of the top 10 oil crops in the world and has extremely valuable uses. Castor inflorescences directly affect yield, so the study of inflorescence development is very important in increasing castor yield. Our previous studies have shown that the PIP5K gene family (PIP5Ks) is associated with inflorescence development. In this study, to determine the function of each PIP5K gene in castor, a female Lm-type castor line, aLmAB2, was used to determine the relative expression levels of the PIP5Ks in castor inflorescences. Six PIP5K genes were heterologously overexpressed in Arabidopsis thaliana, the relative expression of each gene and… More >

  • Open Access

    ARTICLE

    Genome-Wide Analysis of the F3′5′H Gene Family in Blueberry (Vaccinium corymbosum L.) Provides Insights into the Regulation of Anthocyanin Biosynthesis

    Xiaolan Guo1,2, Jinbin Hu3, Shimei Yang4, Delu Wang2,*, Jianbing Wang1

    Phyton-International Journal of Experimental Botany, Vol.92, No.9, pp. 2683-2697, 2023, DOI:10.32604/phyton.2023.029820

    Abstract The F3′5′H gene family plays an important role in regulating anthocyanin biosynthesis, abiotic stress, and hormone signaling. In this study, 14 F3′5′H genes were identified from the blueberry genome. The chromosomal distribution, physicochemical properties, F3′5′H domain, conserved motifs, cis-acting elements, and intron/exon compositions were analyzed. The functional prediction analysis of these VcF3′5′Hs indicated that their biological functions included light response and other secondary metabolites. The results of qRT-PCR showed that VcF3′5′Hs (especially VcF3′5′H4) were highly expressed at the ripening stage. Subcellular localization revealed that VcF3′5′H4 may be located in the endoplasmic reticulum. Co-expression analysis showed that the VcF3′5′H gene family… More >

  • Open Access

    ARTICLE

    Identification of the SERK Gene Family in Paulownia fortunei and Its Involvement in the Response to Biotic and Abiotic Stresses

    Tongman Zhao1,2,#, Yujie Fan1,2,#, Yabing Cao1,2, Xiaogai Zhao1,2, Guoqiang Fan1,2,*

    Phyton-International Journal of Experimental Botany, Vol.92, No.9, pp. 2473-2488, 2023, DOI:10.32604/phyton.2023.029469

    Abstract Somatic embryogenesis receptor-like kinases (SERKs) are receptor-like proteins that contain leucine-rich repeats and are involved in various signaling pathways. This study identified SERK family members in the Paulownia fortunei genome and analyzed their characteristics and expression profiles using bioinformatics methods. We identified 12 SERK genes with relatively conserved gene structures and motifs that were distributed unevenly on eight Paulownia chromosomes. The gene promoters contained various cis-acting elements that regulated the expression of the PfSERK genes in response to hormones and abiotic stresses. Synteny analysis indicated that 10 segmental duplication events had occurred during evolution of the PfSERK family. The expression… More >

  • Open Access

    ARTICLE

    Genome-Wide Analysis of the KANADI Gene Family and Its Expression Patterns under Different Nitrogen Concentrations Treatments in Populus trichocarpa

    Minghui Niu1,#, Heng Zhang1,#, Xiangyang Li1, Zhibao Hu1, Hongjiao Zhang2,3, Zhiru Xu2,3, Chunpu Qu1,4,*, Guanjun Liu1,*

    Phyton-International Journal of Experimental Botany, Vol.92, No.7, pp. 2001-2015, 2023, DOI:10.32604/phyton.2023.029350

    Abstract KANADI (KAN) is a plant-specific gene that controlled the polarity development of lateral organs. It mainly acted on the abaxial characteristics of plants to make the lateral organs asymmetrical. However, it had been less identified in woody plants. In this study, the members of the KAN gene family in Populus trichocarpa were identified and analyzed using the bioinformatics method. The results showed that a total of 8 KAN family members were screened out, and each member contained the unique GARP domain and conserved region of the family proteins. Phylogenetic analysis and their gene structures revealed that all KAN genes from… More >

  • Open Access

    ARTICLE

    Genome-Wide Identification and Expression Analysis of the Phytocyanin Gene Family in Nicotiana tabacum

    Peiling Wang1,#, Xiaohong Xu2,#, Yong Li2, Hecui Zhang1, Xuejie Zhang3, Siru Zhou1, Yimei Liu1, Yunyan Feng1, Tonghong Zuo1, Liquan Zhu1,*

    Phyton-International Journal of Experimental Botany, Vol.92, No.5, pp. 1469-1492, 2023, DOI:10.32604/phyton.2023.027133

    Abstract Phytocyanin (PC) is a class of plant-specific blue copper proteins involved in electron transport, plant growth, development, and stress resistance. However, PC proteins have not been systematically evaluated in tobacco plants. We determined the whole-genome sequences of the PC family in the tobacco cultivar ‘K326.’ The transcriptome data were used to analyze the expression of the NtPC family at different development stages and tissue-specific genes. Real-time fluorescence quantitative analysis was used to analyze the expression of the NtPC gene family under low temperature and methyl jasmonate stress. The tobacco NtPC family contained 110 members and was divided into four subfamilies:… More >

  • Open Access

    ARTICLE

    Genome-Wide Identification and Characterisation of Abiotic Stress Responsive mTERF Gene Family in Amaranthus hypochondriacus

    Mortaza Hajyzadeh*

    Phyton-International Journal of Experimental Botany, Vol.92, No.5, pp. 1649-1664, 2023, DOI:10.32604/phyton.2023.028028

    Abstract Abiotic stresses at different growth stages in the life of plants negatively affect yield productivity. Therefore, plants, including Amaranthus hypochondriacus, develop adaptive strategies to face the stresses and expand functional diversification. In plants, the mitochondrial transcription termination factors (mTERF) are essential functions in regulation, and organelles (mitochondria and chloroplasts) control gene expression (OGE) under several stress conditions. Based on the in-silico-wide genome and transcriptome analysis, twenty-four mTERF genes were detected in the main targeted mitochondria organelles clustered into three different main groups. The chromosomal location and gene duplication analysis indicated one segmental and one tandem duplication in the genome. The… More >

  • Open Access

    ARTICLE

    Genome-Wide Identification, Evolution and Expression Analyses of GA2ox Gene Family in Brassica napus L.

    Yanhua Li1,#, Hualei Huang1,#, Youming Shi1, Shuqin Huang1, Tao Liu1, Changming Xiao1, Xiaoqing Tian2, Ping Zhao1, Xiaoyan Dai3, Taocui Huang1,*, Yan Zhou1,*

    Phyton-International Journal of Experimental Botany, Vol.92, No.3, pp. 815-835, 2023, DOI:10.32604/phyton.2023.023928

    Abstract Gibberellin 2-oxidases (GA2ox) are important enzymes that maintain the balance of bioactive GAs in plants. GA2ox genes have been identified and characterized in many plants, but these genes were not investigated in Brassica napus. Here, we identified 31 GA2ox genes in B. napus and 15 of these BnaGA2ox genes were distributed in the A and C subgenomes. Subcellular localization predictions suggested that all BnaGA2ox proteins were localized in the cytoplasm, and gene structure analysis showed that the BnaGA2ox genes contained 2–4 exons. Phylogenetic analysis indicated that BnGA2ox family proteins in monocotyledons and dicotyledons can be divided into four groups, including… More >

  • Open Access

    ARTICLE

    Genome-wide identification of NAC gene family and expression analysis under abiotic stresses in Salvia miltiorrhiza

    XIN LI1, JIANMIN PAN1, FAISAL ISLAM2, JUANJUAN LI1, ZHUONI HOU1, ZONGQI YANG1, LING XU1,*

    BIOCELL, Vol.46, No.8, pp. 1947-1958, 2022, DOI:10.32604/biocell.2022.019806

    Abstract NAC (NAM, ATAF, CUC) is a class of transcription factors involved in plant growth regulation, abiotic stress responses, morphogenesis and metabolism. Salvia miltiorrhiza is an important Chinese medicinal herb, but the characterization of NAC genes in this species is limited. In this study, based on the Salvia miltiorrhiza genomic databases, 82 NAC transcription factors were identified, which were divided into 14 groups. Meanwhile, phylogenetic analysis, gene structure, chromosomal localization and potential role of SmNACs in abiotic stress conditions were also studied. The results revealed that some SmNACs had different structures than others, which advised that these genes may have multiple/distinct… More >

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