The Grapevine Expression Atlas Reveals a Deep Transcriptome Shift Driving the Entire Plant into a Maturation Program

被引：309

作者：

Fasoli, Marianna ^{[1
]}

Dal Santo, Silvia ^{[1
]}

Zenoni, Sara ^{[1
]}

Tornielli, Giovanni Battista ^{[1
]}

Farina, Lorenzo ^{[2
]}

Zamboni, Anita ^{[1
]}

Porceddu, Andrea ^{[3
]}

Venturini, Luca ^{[1
]}

Bicego, Manuele ^{[4
]}

Murino, Vittorio ^{[5
]}

Ferrarini, Alberto ^{[1
]}

Delledonne, Massimo ^{[1
]}

Pezzotti, Mario ^{[1
]}

机构：

[1] Univ Verona, Dipartimento Biotecnol, I-37134 Verona, Italy

[2] Univ Roma La Sapienza, Dipartimento Informat & Sistemist Antonio Ruberti, I-00185 Rome, Italy

[3] Univ Sassari, Dipartimento Sci Agron & Genet Vegetale Agr, I-07100 Sassari, Italy

[4] Univ Verona, Dipartimento Informat, I-37134 Verona, Italy

[5] Ist Italiano Tecnol, I-16163 Genoa, Italy

来源：

PLANT CELL | 2012年 / 24卷 / 09期

关键词：

GENE-EXPRESSION; MOLECULAR ANALYSIS; GENOME; IDENTIFICATION; PROTEINS; FAMILY; CUTICLE; STRESS; JASMONATE; SEQUENCE;

D O I：

10.1105/tpc.112.100230

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

We developed a genome-wide transcriptomic atlas of grapevine (Vitis vinifera) based on 54 samples representing green and woody tissues and organs at different developmental stages as well as specialized tissues such as pollen and senescent leaves. Together, these samples expressed; similar to 91% of the predicted grapevine genes. Pollen and senescent leaves had unique transcriptomes reflecting their specialized functions and physiological status. However, microarray and RNA-seq analysis grouped all the other samples into two major classes based on maturity rather than organ identity, namely, the vegetative/green and mature/woody categories. This division represents a fundamental transcriptomic reprogramming during the maturation process and was highlighted by three statistical approaches identifying the transcriptional relationships among samples (correlation analysis), putative biomarkers (O2PLS-DA approach), and sets of strongly and consistently expressed genes that define groups (topics) of similar samples (biclustering analysis). Gene coexpression analysis indicated that the mature/woody developmental program results from the reiterative coactivation of pathways that are largely inactive in vegetative/green tissues, often involving the coregulation of clusters of neighboring genes and global regulation based on codon preference. This global transcriptomic reprogramming during maturation has not been observed in herbaceous annual species and may be a defining characteristic of perennial woody plants.

引用

页码：3489 / 3505

页数：17

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[41] Proteomics approach to identify dehydration responsive nuclear proteins from chickpea (Cicer arietinum L.) [J].