title: Does epigenetic polymorphism contribute to phenotypic variances in Jatropha curcas L.?
abstract: BACKGROUND
  There is a growing interest in Jatropha curcas L. (jatropha) as a biodiesel feedstock plant. Variations in its morphology and seed productivity have been well documented. However, there is the lack of systematic comparative evaluation of distinct collections under same climate and agronomic practices. With the several reports on low genetic diversity in jatropha collections, there is uncertainty on genetic contribution to jatropha morphology.
  
  
  RESULTS
  In this study, five populations of jatropha plants collected from China (CN), Indonesia (MD), Suriname (SU), Tanzania (AF) and India (TN) were planted in one farm under the same agronomic practices. Their agronomic traits (branching pattern, height, diameter of canopy, time to first flowering, dormancy, accumulated seed yield and oil content) were observed and tracked for two years. Significant variations were found for all the agronomic traits studied. Genetic diversity and epigenetic diversity were evaluated using florescence Amplified Fragment Length Polymorphism (fAFLP) and methylation sensitive florescence AFLP (MfAFLP) methods. Very low level of genetic diversity was detected (polymorphic band <0.1%) within and among populations. In contrast, intermediate but significant epigenetic diversity was detected (25.3% of bands were polymorphic) within and among populations. More than half of CCGG sites surveyed by MfAFLP were methylated with significant difference in inner cytosine and double cytosine methylation among populations. Principal coordinates analysis (PCoA) based on Nei's epigenetic distance showed Tanzania/India group distinct from China/Indonesia/Suriname group. Inheritance of epigenetic markers was assessed in one F1 hybrid population between two morphologically distinct parent plants and one selfed population. 30 out of 39 polymorphic markers (77%) were found heritable and followed Mendelian segregation. One epiallele was further confirmed by bisulphite sequencing of its corresponding genomic region.
  
  
  CONCLUSIONS
  Our study confirmed climate and practice independent differences in agronomic performance among jatropha collections. Such agronomic trait variations, however, were matched by very low genetic diversity and medium level but significant epigenetic diversity. Significant difference in inner cytosine and double cytosine methylation at CCGG sites was also found among populations. Most epigenetic differential markers can be inherited as epialleles following Mendelian segregation. These results suggest possible involvement of epigenetics in jatropha development.
authors.affiliation: JOil (S) Pte Ltd, 1 Research Link, Singapore 117604.
authors.forename: Chengxin
authors.initials: C
authors.lastname: Yi
authors.forename: Shilu
authors.initials: S
authors.lastname: Zhang
authors.forename: Xiaokun
authors.initials: X
authors.lastname: Liu
authors.forename: Ha T N
authors.initials: HT
authors.lastname: Bui
authors.forename: Yan
authors.initials: Y
authors.lastname: Hong
mesh_terms: D054458:Amplified Fragment Length Polymorphism Analysis / Q000379:methods; D001483:Base Sequence; D002681:China; D018744:DNA, Plant / Q000737:chemistry / Q000235:genetics; D057890:Epigenomics; D014644:Genetic Variation; D007194:India; D007214:Indonesia; D031286:Jatropha / Q000145:classification / Q000235:genetics* / Q000254:growth & development*; D008969:Molecular Sequence Data; D010641:Phenotype; D011110:Polymorphism, Genetic; D017422:Sequence Analysis, DNA; D012689:Sequence Homology, Nucleic Acid; D013045:Species Specificity; D013532:Suriname; D013636:Tanzania
chemical_list: D018744:DNA, Plant