title: Analysis of expressed sequence tags from Actinidia: applications of a cross species EST database for gene discovery in the areas of flavor, health, color and ripening.
abstract: BACKGROUND
  Kiwifruit (Actinidia spp.) are a relatively new, but economically important crop grown in many different parts of the world. Commercial success is driven by the development of new cultivars with novel consumer traits including flavor, appearance, healthful components and convenience. To increase our understanding of the genetic diversity and gene-based control of these key traits in Actinidia, we have produced a collection of 132,577 expressed sequence tags (ESTs).
  
  
  RESULTS
  The ESTs were derived mainly from four Actinidia species (A. chinensis, A. deliciosa, A. arguta and A. eriantha) and fell into 41,858 non redundant clusters (18,070 tentative consensus sequences and 23,788 EST singletons). Analysis of flavor and fragrance-related gene families (acyltransferases and carboxylesterases) and pathways (terpenoid biosynthesis) is presented in comparison with a chemical analysis of the compounds present in Actinidia including esters, acids, alcohols and terpenes. ESTs are identified for most genes in color pathways controlling chlorophyll degradation and carotenoid biosynthesis. In the health area, data are presented on the ESTs involved in ascorbic acid and quinic acid biosynthesis showing not only that genes for many of the steps in these pathways are represented in the database, but that genes encoding some critical steps are absent. In the convenience area, genes related to different stages of fruit softening are identified.
  
  
  CONCLUSIONS
  This large EST resource will allow researchers to undertake the tremendous challenge of understanding the molecular basis of genetic diversity in the Actinidia genus as well as provide an EST resource for comparative fruit genomics. The various bioinformatics analyses we have undertaken demonstrates the extent of coverage of ESTs for genes encoding different biochemical pathways in Actinidia.
authors.affiliation: The Horticultural and Food Research Institute of New Zealand, PB 92169, Auckland, New Zealand. RCrowhurst@hortresearch.co.nz
authors.forename: Ross N
authors.initials: RN
authors.lastname: Crowhurst
authors.forename: Andrew P
authors.initials: AP
authors.lastname: Gleave
authors.forename: Elspeth A
authors.initials: EA
authors.lastname: MacRae
authors.forename: Charles
authors.initials: C
authors.lastname: Ampomah-Dwamena
authors.forename: Ross G
authors.initials: RG
authors.lastname: Atkinson
authors.forename: Lesley L
authors.initials: LL
authors.lastname: Beuning
authors.forename: Sean M
authors.initials: SM
authors.lastname: Bulley
authors.forename: David
authors.initials: D
authors.lastname: Chagne
authors.forename: Ken B
authors.initials: KB
authors.lastname: Marsh
authors.forename: Adam J
authors.initials: AJ
authors.lastname: Matich
authors.forename: Mirco
authors.initials: M
authors.lastname: Montefiori
authors.forename: Richard D
authors.initials: RD
authors.lastname: Newcomb
authors.forename: Robert J
authors.initials: RJ
authors.lastname: Schaffer
authors.forename: Björn
authors.initials: B
authors.lastname: Usadel
authors.forename: Andrew C
authors.initials: AC
authors.lastname: Allan
authors.forename: Helen L
authors.initials: HL
authors.lastname: Boldingh
authors.forename: Judith H
authors.initials: JH
authors.lastname: Bowen
authors.forename: Marcus W
authors.initials: MW
authors.lastname: Davy
authors.forename: Rheinhart
authors.initials: R
authors.lastname: Eckloff
authors.forename: A Ross
authors.initials: AR
authors.lastname: Ferguson
authors.forename: Lena G
authors.initials: LG
authors.lastname: Fraser
authors.forename: Emma
authors.initials: E
authors.lastname: Gera
authors.forename: Roger P
authors.initials: RP
authors.lastname: Hellens
authors.forename: Bart J
authors.initials: BJ
authors.lastname: Janssen
authors.forename: Karin
authors.initials: K
authors.lastname: Klages
authors.forename: Kim R
authors.initials: KR
authors.lastname: Lo
authors.forename: Robin M
authors.initials: RM
authors.lastname: MacDiarmid
authors.forename: Bhawana
authors.initials: B
authors.lastname: Nain
authors.forename: Mark A
authors.initials: MA
authors.lastname: McNeilage
authors.forename: Maysoon
authors.initials: M
authors.lastname: Rassam
authors.forename: Annette C
authors.initials: AC
authors.lastname: Richardson
authors.forename: Erik Ha
authors.initials: EH
authors.lastname: Rikkerink
authors.forename: Gavin S
authors.initials: GS
authors.lastname: Ross
authors.forename: Roswitha
authors.initials: R
authors.lastname: Schröder
authors.forename: Kimberley C
authors.initials: KC
authors.lastname: Snowden
authors.forename: Edwige J F
authors.initials: EJ
authors.lastname: Souleyre
authors.forename: Matt D
authors.initials: MD
authors.lastname: Templeton
authors.forename: Eric F
authors.initials: EF
authors.lastname: Walton
authors.forename: Daisy
authors.initials: D
authors.lastname: Wang
authors.forename: Mindy Y
authors.initials: MY
authors.lastname: Wang
authors.forename: Yanming Y
authors.initials: YY
authors.lastname: Wang
authors.forename: Marion
authors.initials: M
authors.lastname: Wood
authors.forename: Rongmei
authors.initials: R
authors.lastname: Wu
authors.forename: Yar-Khing
authors.initials: YK
authors.lastname: Yauk
authors.forename: William A
authors.initials: WA
authors.lastname: Laing
mesh_terms: D029042:Actinidia / Q000235:genetics* / Q000254:growth & development / Q000378:metabolism / Q000502:physiology*; D000328:Adult; D000485:Allergens / Q000235:genetics; D001205:Ascorbic Acid / Q000235:genetics / Q000378:metabolism; D002648:Child; D003062:Codon; D016384:Consensus Sequence; D030541:Databases, Genetic; D004952:Esters / Q000378:metabolism; D020224:Expressed Sequence Tags; D005638:Fruit / Q000235:genetics / Q000254:growth & development* / Q000378:metabolism; D017343:Genes, Plant / Q000235:genetics; D005819:Genetic Markers; D006801:Humans; D018895:Microsatellite Repeats; D008969:Molecular Sequence Data; D020411:Oligonucleotide Array Sequence Analysis; D010802:Phylogeny; D010858:Pigmentation / Q000235:genetics*; D010860:Pigments, Biological / Q000096:biosynthesis / Q000235:genetics; D020641:Polymorphism, Single Nucleotide; D011801:Quinic Acid / Q000378:metabolism; D017421:Sequence Analysis; D013649:Taste; D013729:Terpenes / Q000378:metabolism
chemical_list: D000485:Allergens; D003062:Codon; D004952:Esters; D005819:Genetic Markers; D010860:Pigments, Biological; D013729:Terpenes; D011801:Quinic Acid; D001205:Ascorbic Acid