Literature DB >> 14681435

TropGENE-DB, a multi-tropical crop information system.

Manuel Ruiz1, Mathieu Rouard, Louis Marie Raboin, Marc Lartaud, Pierre Lagoda, Brigitte Courtois.   

Abstract

TropGENE-DB, is a crop information system created to store genetic, molecular and phenotypic data of the numerous yet poorly documented tropical crop species. The most common data stored in TropGENE-DB are information on genetic resources (agro-morphological data, parentages, allelic diversity), molecular markers, genetic maps, results of quantitative trait loci analyses, data from physical mapping, sequences, genes, as well as the corresponding references. TropGENE-DB is organized on a crop basis with currently three running modules (sugarcane, cocoa and banana), with plans to create additional modules for rice, cotton, oil palm, coconut, rubber tree, pineapple, taro, yam and sorghum. The TropGENE-DB information system is accessible for consultation via the internet at http://tropgenedb.cirad.fr. Specific web consultation interfaces have been designed to allow quick consultations as well as complex queries.

Entities:  

Mesh：

Year:  2004        PMID： 14681435      PMCID： PMC308839          DOI： 10.1093/nar/gkh105

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  9 in total

1.  UK CropNet: a collection of databases and bioinformatics resources for crop plant genomics.

Authors:  J Dicks; M Anderson; L Cardle; S Cartinhour; M Couchman; G Davenport; J Dickson; M Gale; D Marshall; S May; H McWilliam; A O'Malia; H Ougham; M Trick; S Walsh; R Waugh
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  MagnaportheDB: a federated solution for integrating physical and genetic map data with BAC end derived sequences for the rice blast fungus Magnaporthe grisea.

Authors:  Stanton L Martin; Barbara P Blackmon; Ravi Rajagopalan; Thomas D Houfek; Robert G Sceeles; Sheila O Denn; Thomas K Mitchell; Douglas E Brown; Rod A Wing; Ralph A Dean
Journal:  Nucleic Acids Res       Date:  2002-01-01       Impact factor: 16.971

3.  Scriptable access to the Caenorhabditis elegans genome sequence and other ACEDB databases.

Authors:  L D Stein; J Thierry-Mieg
Journal:  Genome Res       Date:  1998-12       Impact factor: 9.043

4.  aCHEdb: the database system for ESTHER, the alpha/beta fold family of proteins and the Cholinesterase gene server.

Authors:  X Cousin; T Hotelier; K Giles; J P Toutant; A Chatonnet
Journal:  Nucleic Acids Res       Date:  1998-01-01       Impact factor: 16.971

5.  RFLP mapping in cultivated sugarcane (Saccharum spp.): genome organization in a highly polyploid and aneuploid interspecific hybrid.

Authors:  L Grivet; A D'Hont; D Roques; P Feldmann; C Lanaud; J C Glaszmann
Journal:  Genetics       Date:  1996-03       Impact factor: 4.562

6.  A molecular marker-based linkage map of diploid bananas (Musa acuminata).

Authors:  S Fauré; J L Noyer; J P Horry; F Bakry; C Lanaud; D Gońzalez de León
Journal:  Theor Appl Genet       Date:  1993-12       Impact factor: 5.699

7.  WormBase: a cross-species database for comparative genomics.

Authors:  Todd W Harris; Raymond Lee; Erich Schwarz; Keith Bradnam; Daniel Lawson; Wen Chen; Darin Blasier; Eimear Kenny; Fiona Cunningham; Ranjana Kishore; Juancarlos Chan; Hans-Michael Muller; Andrei Petcherski; Gudmundur Thorisson; Allen Day; Tamberlyn Bieri; Anthony Rogers; Chao-Kung Chen; John Spieth; Paul Sternberg; Richard Durbin; Lincoln D Stein
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

8.  ParaDB: a tool for paralogy mapping in vertebrate genomes.

Authors:  Magalie Leveugle; Karine Prat; Nadine Perrier; Daniel Birnbaum; François Coulier
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

9.  A genetic linkage map of Theobroma cacao L.

Authors:  C Lanaud; A M Risterucci; A K N'goran; D Clement; M H Flament; V Laurent; M Falque
Journal:  Theor Appl Genet       Date:  1995-11       Impact factor: 5.699
  9 in total
  13 in total

1.  Analysis of genome-wide linkage disequilibrium in the highly polyploid sugarcane.

Authors:  Louis-Marie Raboin; Jérôme Pauquet; Mike Butterfield; Angélique D'Hont; Jean-Christophe Glaszmann
Journal:  Theor Appl Genet       Date:  2008-01-15       Impact factor: 5.699

2.  Genetic mapping in sugarcane, a high polyploid, using bi-parental progeny: identification of a gene controlling stalk colour and a new rust resistance gene.

Authors:  L-M Raboin; K M Oliveira; L Lecunff; H Telismart; D Roques; M Butterfield; J-Y Hoarau; A D'Hont
Journal:  Theor Appl Genet       Date:  2006-03-22       Impact factor: 5.699

Review 3.  Phenomics, genomics of oil palm (Elaeis guineensis Jacq.): way forward for making sustainable and high yielding quality oil palm.

Authors:  B Kalyana Babu; R K Mathur; P Anitha; G Ravichandran; H P Bhagya
Journal:  Physiol Mol Biol Plants       Date:  2021-03-14

4.  TropGeneDB, the multi-tropical crop information system updated and extended.

Authors:  Chantal Hamelin; Guilhem Sempere; Vincent Jouffe; Manuel Ruiz
Journal:  Nucleic Acids Res       Date:  2012-11-17       Impact factor: 16.971

5.  The GCP molecular marker toolkit, an instrument for use in breeding food security crops.

Authors:  Veerle Van Damme; Humberto Gómez-Paniagua; M Carmen de Vicente
Journal:  Mol Breed       Date:  2010-10-09       Impact factor: 2.589

6.  SPODOBASE: an EST database for the lepidopteran crop pest Spodoptera.

Authors:  Vincent Nègre; Thierry Hôtelier; Anne-Nathalie Volkoff; Sylvie Gimenez; François Cousserans; Kazuei Mita; Xavier Sabau; Janick Rocher; Miguel López-Ferber; Emmanuelle d'Alençon; Pascaline Audant; Cécile Sabourault; Vincent Bidegainberry; Frédérique Hilliou; Philippe Fournier
Journal:  BMC Bioinformatics       Date:  2006-06-23       Impact factor: 3.169

7.  GnpIS: an information system to integrate genetic and genomic data from plants and fungi.

Authors:  Delphine Steinbach; Michael Alaux; Joelle Amselem; Nathalie Choisne; Sophie Durand; Raphaël Flores; Aminah-Olivia Keliet; Erik Kimmel; Nicolas Lapalu; Isabelle Luyten; Célia Michotey; Nacer Mohellibi; Cyril Pommier; Sébastien Reboux; Dorothée Valdenaire; Daphné Verdelet; Hadi Quesneville
Journal:  Database (Oxford)       Date:  2013-08-19       Impact factor: 3.451

8.  Towards the understanding of the cocoa transcriptome: Production and analysis of an exhaustive dataset of ESTs of Theobroma cacao L. generated from various tissues and under various conditions.

Authors:  Xavier Argout; Olivier Fouet; Patrick Wincker; Karina Gramacho; Thierry Legavre; Xavier Sabau; Ange Marie Risterucci; Corinne Da Silva; Julio Cascardo; Mathilde Allegre; David Kuhn; Joseph Verica; Brigitte Courtois; Gaston Loor; Regis Babin; Olivier Sounigo; Michel Ducamp; Mark J Guiltinan; Manuel Ruiz; Laurence Alemanno; Regina Machado; Wilberth Phillips; Ray Schnell; Martin Gilmour; Eric Rosenquist; David Butler; Siela Maximova; Claire Lanaud
Journal:  BMC Genomics       Date:  2008-10-30       Impact factor: 3.969

9.  MoccaDB - an integrative database for functional, comparative and diversity studies in the Rubiaceae family.

Authors:  Olga Plechakova; Christine Tranchant-Dubreuil; Fabrice Benedet; Marie Couderc; Alexandra Tinaut; Véronique Viader; Petra De Block; Perla Hamon; Claudine Campa; Alexandre de Kochko; Serge Hamon; Valérie Poncet
Journal:  BMC Plant Biol       Date:  2009-09-29       Impact factor: 4.215

10.  Clever generation of rich SPARQL queries from annotated relational schema: application to Semantic Web Service creation for biological databases.

Authors:  Julien Wollbrett; Pierre Larmande; Frédéric de Lamotte; Manuel Ruiz
Journal:  BMC Bioinformatics       Date:  2013-04-15       Impact factor: 3.169
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