Tissue-specific transcriptome analysis within the maturing sugarcane stalk reveals spatial regulation in the expression of cellulose synthase and sucrose transporter gene families

2015 ◽  
Vol 89 (6) ◽  
pp. 607-628 ◽  
Author(s):  
Rosanne E. Casu ◽  
Anne L. Rae ◽  
Janine M. Nielsen ◽  
Jai M. Perroux ◽  
Graham D. Bonnett ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Gene Families ◽  
Cellulose Synthase ◽  
Sucrose Transporter ◽  
Transporter Gene ◽  
Tissue Specific ◽  
Spatial Regulation ◽  
Sugarcane Stalk

scholarly journals Structure, phylogeny, allelic haplotypes and expression of sucrose transporter gene families in Saccharum

BMC Genomics ◽  
2016 ◽  
Vol 17 (1) ◽  
Author(s):  
Qing Zhang ◽  
Weichang Hu ◽  
Fan Zhu ◽  
Liming Wang ◽  
Qingyi Yu ◽  
...  
Keyword(s):  
Gene Families ◽  
Sucrose Transporter ◽  
Transporter Gene

Transcriptome analysis reveals important candidate gene families related to oligosaccharides biosynthesis in Morinda officinalis

2021 ◽  
Vol 167 ◽  
pp. 1061-1071
Author(s):  
Mengyun Liu ◽  
Li Yang ◽  
Miaomiao Cai ◽  
Chong Feng ◽  
Zhimin Zhao ◽  
...  
Keyword(s):  
Candidate Gene ◽  
Transcriptome Analysis ◽  
Gene Families

Genome-wide identification of polar auxin transporter gene families reveals a possible new polar auxin flow in inverted cuttings of Populus yunnanensis

Gene ◽  
2020 ◽  
pp. 145349
Author(s):  
An-Pei Zhou ◽  
Yuan-Yuan Zhong ◽  
Si-Qi Li ◽  
Xuan Fei ◽  
Pei-Hua Gan ◽  
...  
Keyword(s):  
Gene Families ◽  
Transporter Gene ◽  
Genome Wide ◽  
Auxin Transporter

scholarly journals Global Survey and Expressions of the Phosphate Transporter Gene Families in Brassica napus and Their Roles in Phosphorus Response

2020 ◽  
Vol 21 (5) ◽  
pp. 1752 ◽  
Author(s):  
Jin Yang ◽  
Jie Zhou ◽  
Hong-Jun Zhou ◽  
Mang-Mang Wang ◽  
Ming-Ming Liu ◽  
...  
Keyword(s):  
Brassica Napus ◽  
Expression Profiles ◽  
Phylogenetic Analyses ◽  
Functional Divergence ◽  
Gene Families ◽  
Small Scale ◽  
Transporter Gene ◽  
Promoter Regions ◽  
Network Analyses ◽  
Group I

Phosphate (Pi) transporters play critical roles in Pi acquisition and homeostasis. However, currently little is known about these genes in oil crops. In this study, we aimed to characterize the five Pi transporter gene families (PHT1-5) in allotetraploid Brassica napus. We identified and characterized 81 putative PHT genes in B. napus (BnaPHTs), including 45 genes in PHT1 family (BnaPHT1s), four BnaPHT2s, 10 BnaPHT3s, 13 BnaPHT4s and nine BnaPHT5s. Phylogenetic analyses showed that the largest PHT1 family could be divided into two groups (Group I and II), while PHT4 may be classified into five, Groups I-V. Gene structure analysis revealed that the exon-intron pattern was conservative within the same family or group. The sequence characteristics of these five families were quite different, which may contribute to their functional divergence. Transcription factor (TF) binding network analyses identified many potential TF binding sites in the promoter regions of candidates, implying their possible regulating patterns. Collinearity analysis demonstrated that most BnaPHTs were derived from an allopolyploidization event (~40.7%) between Brassica rapa and Brassica oleracea ancestors, and small-scale segmental duplication events (~39.5%) in the descendant. RNA-Seq analyses proved that many BnaPHTs were preferentially expressed in leaf and flower tissues. The expression profiles of most colinearity-pairs in B. napus are highly correlated, implying functional redundancy, while a few pairs may have undergone neo-functionalization or sub-functionalization during evolution. The expression levels of many BnaPHTs tend to be up-regulated by different hormones inductions, especially for IAA, ABA and 6-BA treatments. qRT-PCR assay demonstrated that six BnaPHT1s (BnaPHT1.11, BnaPHT1.14, BnaPHT1.20, BnaPHT1.35, BnaPHT1.41, BnaPHT1.44) were significantly up-regulated under low- and/or rich- Pi conditions in B. napus roots. This work analyzes the evolution and expression of the PHT family in Brassica napus, which will help further research on their role in Pi transport.

scholarly journals Gene Discovery and Tissue-Specific Transcriptome Analysis in Chickpea with Massively Parallel Pyrosequencing and Web Resource Development

2011 ◽  
Vol 156 (4) ◽  
pp. 1661-1678 ◽  
Author(s):  
Rohini Garg ◽  
Ravi K. Patel ◽  
Shalu Jhanwar ◽  
Pushp Priya ◽  
Annapurna Bhattacharjee ◽  
...  
Keyword(s):  
Transcriptome Analysis ◽  
Gene Discovery ◽  
Resource Development ◽  
Massively Parallel ◽  
Tissue Specific ◽  
Web Resource ◽  
Parallel Pyrosequencing

scholarly journals Identification and Analysis ofMedicago truncatulaAuxin Transporter Gene Families Uncover their Roles in Responses toSinorhizobium melilotiInfection

2015 ◽  
Vol 56 (10) ◽  
pp. 1930-1943 ◽  
Author(s):  
Chenjia Shen ◽  
Runqing Yue ◽  
Youhuang Bai ◽  
Rong Feng ◽  
Tao Sun ◽  
...  
Keyword(s):  
Gene Families ◽  
Transporter Gene

scholarly journals De novo transcriptome analysis of the critically endangered alpine Himalayan herb Nardostachys jatamansi reveals the biosynthesis pathway genes of tissue-specific secondary metabolites

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Nisha Dhiman ◽  
Anil Kumar ◽  
Dinesh Kumar ◽  
Amita Bhattacharya
Keyword(s):  
Secondary Metabolites ◽  
Transcriptome Analysis ◽  
Vegetative Growth ◽  
De Novo ◽  
Biosynthesis Pathway ◽  
De Novo Transcriptome ◽  
Tissue Specific ◽  
Nardostachys Jatamansi ◽  
Secondary Metabolite Biosynthesis

Abstract The study is the first report on de novo transcriptome analysis of Nardostachys jatamansi, a critically endangered medicinal plant of alpine Himalayas. Illumina GAIIx sequencing of plants collected during end of vegetative growth (August) yielded 48,411 unigenes. 74.45% of these were annotated using UNIPROT. GO enrichment analysis, KEGG pathways and PPI network indicated simultaneous utilization of leaf photosynthates for flowering, rhizome fortification, stress response and tissue-specific secondary metabolites biosynthesis. Among the secondary metabolite biosynthesis genes, terpenoids were predominant. UPLC-PDA analysis of in vitro plants revealed temperature-dependent, tissue-specific differential distribution of various phenolics. Thus, as compared to 25 °C, the phenolic contents of both leaves (gallic acid and rutin) and roots (p-coumaric acid and cinnamic acid) were higher at 15 °C. These phenolics accounted for the therapeutic properties reported in the plant. In qRT-PCR of in vitro plants, secondary metabolite biosynthesis pathway genes showed higher expression at 15 °C and 14 h/10 h photoperiod (conditions representing end of vegetative growth period). This provided cues for in vitro modulation of identified secondary metabolites. Such modulation of secondary metabolites in in vitro systems can eliminate the need for uprooting N. jatamansi from wild. Hence, the study is a step towards effective conservation of the plant.

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