The 'PUCE CAFE' Project: the First 15K Coffee Microarray, a New Tool for Discovering Candidate Genes correlated to Agronomic and Quality Traits

被引：18

作者：

Privat, Isabelle ^{[1
]}

Bardil, Amelie ^{[4
]}

Gomez, Aureliano Bombarely ^{[3
]}

Severac, Dany ^{[2
]}

Dantec, Christelle ^{[2
]}

Fuentes, Ivanna ^{[2
]}

Mueller, Lukas ^{[3
]}

Joet, Thierry ^{[5
]}

Pot, David ^{[6
]}

Foucrier, Severine ^{[1
]}

Dussert, Stephane ^{[5
]}

Leroy, Thierry ^{[5
]}

Journot, Laurent ^{[2
]}

de Kochko, Alexandre ^{[5
]}

Campa, Claudine ^{[5
]}

Combes, Marie-Christine ^{[4
]}

Lashermes, Philippe ^{[4
]}

Bertrand, Benoit ^{[4
]}

机构：

[1] Nestle R&D Tours, F-37097 Tours 2, France

[2] Montpellier Genomix, IGF, F-34094 Montpellier 05, France

[3] Cornell Univ, Boyce Thompson Inst Plant Res, Ithaca, NY 14853 USA

[4] IRD CIRAD, UMR RPB, F-34394 Montpellier, France

[5] IRD, UMR DIAPC, F-34394 Montpellier, France

[6] CIRAD, F-34398 Montpellier 5, France

来源：

BMC GENOMICS | 2011年 / 12卷

基金：

美国国家科学基金会;

关键词：

ARABICA; SEED; TRIACYLGLYCEROL; OLIGONUCLEOTIDE; ACCURACY;

D O I：

10.1186/1471-2164-12-5

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Background: Understanding the genetic elements that contribute to key aspects of coffee biology will have an impact on future agronomical improvements for this economically important tree. During the past years, EST collections were generated in Coffee, opening the possibility to create new tools for functional genomics. Results: The "PUCE CAFE" Project, organized by the scientific consortium NESTLE/IRD/CIRAD, has developed an oligo-based microarray using 15,721 unigenes derived from published coffee EST sequences mostly obtained from different stages of fruit development and leaves in Coffea Canephora (Robusta). Hybridizations for two independent experiments served to compare global gene expression profiles in three types of tissue matter (mature beans, leaves and flowers) in C. canephora as well as in the leaves of three different coffee species (C. canephora, C. eugenoides and C. arabica). Microarray construction, statistical analyses and validation by Q-PCR analysis are presented in this study. Conclusion: We have generated the first 15 K coffee array during this PUCE CAFE project, granted by Genoplante (the French consortium for plant genomics). This new tool will help study functional genomics in a wide range of experiments on various plant tissues, such as analyzing bean maturation or resistance to pathogens or drought. Furthermore, the use of this array has proven to be valid in different coffee species (diploid or tetraploid), drastically enlarging its impact for high-throughput gene expression in the community of coffee research.

引用

页数：14

共 34 条

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