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  • Open Access

    ARTICLE

    Transcriptome Analysis via RNA Sequencing Reveals the Molecular Mechanisms Underlying the Hedera helix Response to High Temperature

    Ting Zhang1,2, Ping Li3,*, Jiali Wei3,*

    Phyton-International Journal of Experimental Botany, Vol.91, No.11, pp. 2403-2417, 2022, DOI:10.32604/phyton.2022.022421

    Abstract Hedera helix is an evergreen ornamental plant that is resistant to cool but not high temperature and deserves to be further researched for improving its adaptability to heat stress. Two Hedera helix cultivars, heat-tolerant (HT) ‘Jessica’ and heat-sensitive (HS) ‘Shamrock’, were used for differences analyses of transcriptome. We detected 6179 differentially expressed genes (DEGs) and 5992 DEGs in ‘Jessica’ and ‘Shamrock’ to heat stress, respectively. Among these, 1983 upregulated DEGs and 1400 downregulated DEGs were shared between both varieties, resulting in enhancement of various pathways such as biosynthesis of secondary metabolites, glyoxylate dicarboxylate metabolism, and protein processing in endoplasmic reticulum… More >

  • Open Access

    ARTICLE

    Transcriptome Profiling of Flower Development Reveals Key Genes Mediating Yellow Formation in Tree Peony

    Yanzhao Zhang*, Chenyang Yu, Xi Lu, Yanwei Cheng

    Phyton-International Journal of Experimental Botany, Vol.91, No.11, pp. 2505-2518, 2022, DOI:10.32604/phyton.2022.021455

    Abstract Tree peony cultivars with yellow flowers are rare and valuable, but the molecular mechanism of pigment accumulation is not clear. In this study, the petal transcriptome of three developmental stages were sequenced to determine the differentially expressed genes (DEGs) regulating yellow flowers color. The results showed that 10,842 and 12,022 DEGs were screened in stage 1 vs. stage 2 and in stage 2 vs. stage 3, respectively. Through analysis of flavonoid structural genes (FSGs), we found that the transcription level of DFR was very low in the three developmental stages. In a small group of cultivars, the DFR transcription level… More >

  • Open Access

    ARTICLE

    Transcriptome Analysis and Morphological Changes in Response to Waterlogging in Iris pseudacorus

    Xiaofang Yu#,*, Linjie Yue#, Qing Wu, Liu Yang, Chunyu Fan, Zhiwen Wang, Jiani Hu

    Phyton-International Journal of Experimental Botany, Vol.91, No.10, pp. 2135-2162, 2022, DOI:10.32604/phyton.2022.020139

    Abstract Iris pseudacorus is a widely cultivated and studied ornamental plant with a large biomass, strong adaptability and extensive management. Moreover, it has the ability to decontaminate and enrich heavy metals. However, few studies have been conducted on its submergence tolerance with little known about the molecular response of I. pseudacorus to flooding. Morphologically, I. pseudacorus had strong adaptability to waterlogging, the aerenchyma was gradually enlarged and adventitious roots developed between 0 and 14 d. The transcriptome data showed that the differentially expressed genes counts in plants flooded for 2 h, 4 h, 12 h and 24 h compared with the… More >

  • Open Access

    ARTICLE

    Transcriptome analysis combined with metabolome analysis reveals the significant functions of CesA genes in cotton (Gossypium hirsutum) fiber length development

    ZHENKUI CUI1,#,*, GUIQIN SUN2,#,*, QUANZHI ZHAO1

    BIOCELL, Vol.46, No.9, pp. 2133-2144, 2022, DOI:10.32604/biocell.2022.020512

    Abstract Cotton is widely distributed worldwide, and improving the quality of its fiber is one of the most important tasks in cotton breeding. Cotton fibers are primarily composed of cellulose, which is synthesized by CesA complexes (CSCs). However, the functions of CesA genes in cotton fiber development have not been comprehensively analysed. In this study, the cotton transcriptome and metabolome were used to investigate the function of CesA genes in fiber development. Finally, 321 metabolites were obtained, 84 of which were associated with the corresponding genes. Interestingly, a target gene named Gh_A08G144300, one of the CesA gene family members, was closely… More >

  • Open Access

    ARTICLE

    De novo Transcriptome Analysis in Leymus mollis to Unveil Genes Involved in Salt Stress Response

    Wenting Wu1 , Yajing Zhang1, Yu Gao1, Kai Zhang2,3, Luying Zhu1,3,*, Hongxia Zhang2,3

    Phyton-International Journal of Experimental Botany, Vol.91, No.8, pp. 1629-1642, 2022, DOI:10.32604/phyton.2022.020515

    Abstract Leymus mollis, a wild relative of wheat, is very tolerant to salt stress, and has been considered as a valuable genetic resource for wheat breeding. However, the genetic basis for salt tolerance of this species is still largely unknown. In this study, de novo sequencing, assembly and analysis of L. mollis transcriptome in response to salt stress was performed. A total of 110,323 and 112,846 unigenes were generated for the NaCl-free (CK) and 180 mM NaCl-treated (CT) library, respectively. For the two libraries, 73,414 unigenes were successfully annotated in five common protein databases, and 7521 differentially expressed genes (DEGs) between… More >

  • Open Access

    ARTICLE

    Comparative Transcriptome Analysis Reveals Different Mechanisms of Adaptation to Environment among Three Species of Saussurea DC.

    Weimin Zhao1, Fengzhen Li1, Guomin Shi3, Jialei Guo1, Guifang He1, Tao He2,3,*

    Phyton-International Journal of Experimental Botany, Vol.91, No.7, pp. 1517-1528, 2022, DOI:10.32604/phyton.2022.019630

    Abstract Saussurea medusa, Saussurea hypsipeta and Saussurea obvallata are typical alpine snowline plants growing in the Qinghai-Tibet plateau. They are characterized by a specialized morphology. S. medusa and S. hypsipeta have very dense trichomes on whole plant, whereas S. obvallata has transparent bracts covered inflorescences. The different forms reflect their adaptation to cold environments. To investigate the different mechanisms of adaptation of these species to cold temperatures, transcriptome sequencing was performed in three species of Saussurea DC. A total of 116394 137237 and 113879 Unigenes were identified from S. medusa, S. hypsipeta and S. obvallata, respectively. Of these, 55909 (48.03%), 65519… More >

  • Open Access

    ARTICLE

    Transcriptome Profiling of Barley Cultivar Hua 30 MDEC in Response to Agrobacterium Infection

    Yingbo Li1,2,#, Ting He1,2,#, Guimei Guo1,2, Hongwei Xu1,2, Yingjie Zong1,2, Shuwei Zhang1,2, Ruiju Lu1,2, Longhua Zhou1,2,*, Chenghong Liu1,2,*

    Phyton-International Journal of Experimental Botany, Vol.91, No.6, pp. 1153-1164, 2022, DOI:10.32604/phyton.2022.019520

    Abstract Agrobacterium-mediated transformation has been widely used in plants. However, the mechanism in plant cells’ response to Agrobacterium infection was very complex. The mechanism of the determinants in host cell remains obscure, especially in barley, which is recalcitrant for Agrobacterium-mediated transformation. In the present study, microspore-derived embryogenic calli (MDEC) from barley elite cultivar were employed as unique subjects to characterize the mechanisms during the Agrobacterium infection process. Hua 30 MDEC can be successfully infected by Agrobacterium. RNA-sequencing at different infection points (0, 2, 6, 12, 24 hpi) was performed. The average expressional intensity of the whole genomics increased from 0 to… More >

  • Open Access

    ARTICLE

    Integrated Analysis of Metabolome and Transcriptome of Bambusa emeiensis Shoots in Response to Bamboo Snout Beetle Cyrtotrachelus buqueti (Coleoptera: Curculionidae)

    Hao Tang#, Yuanqiu Li#, Chaobing Luo*

    Phyton-International Journal of Experimental Botany, Vol.91, No.6, pp. 1227-1244, 2022, DOI:10.32604/phyton.2022.019278

    Abstract Plants have evolved constitutive and inductive defense mechanisms to protect themselves from herbivorous insects. Metabolites in plants are thought to be involved in response to herbivores. Bambusa emeiensis is an important bamboo species widely distributed in Southwest China. It is easy to attract herbivores such as Cyrtotrachelus buqueti. Through the detection and analysis of metabolites in B. emeiensis metabolomic data, 35 differential metabolites (biomarkers) were finally identified from 206 detection peaks, mainly primary metabolites. Subsequently, we conducted an association analysis between 35 biomarkers that annotated to be involved in 71 metabolic pathways in the metabolome and 324 differentially expressed genes… More >

  • Open Access

    ARTICLE

    Transcriptome Analysis of Soybean in Response to Different Sulfur Concentrations

    Xiyue Wang1, Xiaomei Li2, Zihao Wu1, Shoukun Dong1,*

    Phyton-International Journal of Experimental Botany, Vol.91, No.6, pp. 1165-1182, 2022, DOI:10.32604/phyton.2022.019130

    Abstract Sulfur is an indispensable nutrient for plant growth and development, and is important in the synthesis of sulfur-containing amino acids. Although several studies on the effects of some macronutrients, including nitrogen and phosphorus, have been conducted on the performance of several crops at the genomic level, studies on the effect of sulfur on crop performance are limited. Therefore, this study aimed to examine the effect of different sulfur concentration on the transcriptome of soybean. Additionally, soybean yield parameters were also examined. Two soybean varieties, DND252 and HN84, were exposed to low and high concentrations of sulfur, and differentially expressed genes… More >

  • Open Access

    ARTICLE

    A global study of transcriptome dynamics in the venom gland of Solenopsis invicta Buren during laboratory rearing

    LIMIN CHEN1,2, XIAOWEI LI1, TIANJUN HE2, QUANCONG WU2, TINGTING CHEN3, JUN HUANG1,*, YAOBIN LU1,*

    BIOCELL, Vol.46, No.3, pp. 821-828, 2022, DOI:10.32604/biocell.2021.016450

    Abstract Venom plays several important roles in the life of the fire ant, Solenopsis invicta Buren. Laboratory rearing significantly affected the toxin component of S. invicta. However, the molecular mechanism of the change of venomous components when kept in the laboratory is unclear. In this study, RNA sequencing technique (RNA-Seq) was performed to explore differentially expressed genes in the venom gland of S. invicta at 0, 10, and 60 days after laboratory rearing. The RNA-Seq results showed that the expression of a large number of genes changed. The DEGs were involved in multiple pathways, including proteolysis, serine-type endopeptidase, and allergen. Furthermore,… More >

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