title: Tomato Fruits Show Wide Phenomic Diversity but Fruit Developmental Genes Show Low Genomic Diversity.
abstract: Domestication of tomato has resulted in large diversity in fruit phenotypes. An intensive phenotyping of 127 tomato accessions from 20 countries revealed extensive morphological diversity in fruit traits. The diversity in fruit traits clustered the accessions into nine classes and identified certain promising lines having desirable traits pertaining to total soluble salts (TSS), carotenoids, ripening index, weight and shape. Factor analysis of the morphometric data from Tomato Analyzer showed that the fruit shape is a complex trait shared by several factors. The 100% variance between round and flat fruit shapes was explained by one discriminant function having a canonical correlation of 0.874 by stepwise discriminant analysis. A set of 10 genes (ACS2, COP1, CYC-B, RIN, MSH2, NAC-NOR, PHOT1, PHYA, PHYB and PSY1) involved in various plant developmental processes were screened for SNP polymorphism by EcoTILLING. The genetic diversity in these genes revealed a total of 36 non-synonymous and 18 synonymous changes leading to the identification of 28 haplotypes. The average frequency of polymorphism across the genes was 0.038/Kb. Significant negative Tajima'D statistic in two of the genes, ACS2 and PHOT1 indicated the presence of rare alleles in low frequency. Our study indicates that while there is low polymorphic diversity in the genes regulating plant development, the population shows wider phenotype diversity. Nonetheless, morphological and genetic diversity of the present collection can be further exploited as potential resources in future.
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Vijee
authors.initials: V
authors.lastname: Mohan
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Soni
authors.initials: S
authors.lastname: Gupta
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Sherinmol
authors.initials: S
authors.lastname: Thomas
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Hanjabam
authors.initials: H
authors.lastname: Mickey
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Chaitanya
authors.initials: C
authors.lastname: Charakana
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Vineeta Singh
authors.initials: VS
authors.lastname: Chauhan
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Kapil
authors.initials: K
authors.lastname: Sharma
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Rakesh
authors.initials: R
authors.lastname: Kumar
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Kamal
authors.initials: K
authors.lastname: Tyagi
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Supriya
authors.initials: S
authors.lastname: Sarma
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Suresh Kumar
authors.initials: SK
authors.lastname: Gupta
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Himabindu Vasuki
authors.initials: HV
authors.lastname: Kilambi
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Sapana
authors.initials: S
authors.lastname: Nongmaithem
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Alka
authors.initials: A
authors.lastname: Kumari
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Prateek
authors.initials: P
authors.lastname: Gupta
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Yellamaraju
authors.initials: Y
authors.lastname: Sreelakshmi
authors.affiliation: Repository of Tomato Genomics Resources, Department of Plant Sciences, University of Hyderabad, Hyderabad, India.
authors.forename: Rameshwar
authors.initials: R
authors.lastname: Sharma
mesh_terms: D005638:Fruit / Q000235:genetics* / Q000254:growth & development* / Q000378:metabolism; D017343:Genes, Plant / Q000235:genetics; D023281:Genomics; D018551:Solanum lycopersicum / Q000235:genetics* / Q000254:growth & development* / Q000378:metabolism; D010641:Phenotype; D020641:Polymorphism, Single Nucleotide