Limits...
High level of molecular and phenotypic biodiversity in Jatropha curcas from Central America compared to Africa, Asia and South America.

Montes Osorio LR, Torres Salvador AF, Jongschaap RE, Azurdia Perez CA, Berduo Sandoval JE, Trindade LM, Visser RG, van Loo EN - BMC Plant Biol. (2014)

Bottom Line: Accessions from the Central American population contain alleles that were not found in the accessions from other populations.A high level of genetic variation was found on early growth traits and on components of the relative growth rate (specific leaf area, leaf weight, leaf weight ratio and net assimilation rate) as indicated by significant differences between accessions and by the high heritability values (50-88%).Some variation in early growth traits was found within a group of accessions from Asia and Africa, while these accessions did not differ in a single DNA-marker, possibly indicating epigenetic variation.

View Article: PubMed Central - HTML - PubMed

Affiliation: Plant Breeding, Wageningen University and Research Centre, PO Box 386, 6700 AJ Wageningen, The Netherlands. robert.vanloo@wur.nl.

ABSTRACT

Background: The main bottleneck to elevate jatropha (Jatropha curcas L.) from a wild species to a profitable biodiesel crop is the low genetic and phenotypic variation found in different regions of the world, hampering efficient plant breeding for productivity traits. In this study, 182 accessions from Asia (91), Africa (35), South America (9) and Central America (47) were evaluated at genetic and phenotypic level to find genetic variation and important traits for oilseed production.

Results: Genetic variation was assessed with SSR (Simple Sequence Repeat), TRAP (Target Region Amplification Polymorphism) and AFLP (Amplified fragment length polymorphism) techniques. Phenotypic variation included seed morphological characteristics, seed oil content and fatty acid composition and early growth traits. Jaccard's similarity and cluster analysis by UPGM (Unweighted Paired Group Method) with arithmetic mean and PCA (Principle Component Analysis) indicated higher variability in Central American accessions compared to Asian, African and South American accessions. Polymorphism Information Content (PIC) values ranged from 0 to 0.65. In the set of Central American accessions. PIC values were higher than in other regions. Accessions from the Central American population contain alleles that were not found in the accessions from other populations. Analysis of Molecular Variance (AMOVA; P < 0.0001) indicated high genetic variation within regions (81.7%) and low variation across regions (18.3%). A high level of genetic variation was found on early growth traits and on components of the relative growth rate (specific leaf area, leaf weight, leaf weight ratio and net assimilation rate) as indicated by significant differences between accessions and by the high heritability values (50-88%). The fatty acid composition of jatropha oil significantly differed (P < 0.05) between regions.

Conclusions: The pool of Central American accessions showed very large genetic variation as assessed by DNA-marker variation compared to accessions from other regions. Central American accessions also showed the highest phenotypic variation and should be considered as the most important source for plant breeding. Some variation in early growth traits was found within a group of accessions from Asia and Africa, while these accessions did not differ in a single DNA-marker, possibly indicating epigenetic variation.

Show MeSH

Related in: MedlinePlus

UPGMA cluster analysis of 133 J. curcas accessions of the JEP germplasm collection using the Jaccard’s similarity index. Colours indicate the origin of the accessions. Groups A and B were indicated by structure 2.3 (k = 2).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
getmorefigures.php?uid=PMC3987055&req=5

Figure 1: UPGMA cluster analysis of 133 J. curcas accessions of the JEP germplasm collection using the Jaccard’s similarity index. Colours indicate the origin of the accessions. Groups A and B were indicated by structure 2.3 (k = 2).

Mentions: The markers scores of 190 DNA markers were used to determine the genetic distances between 182 accessions in the JEP collection using Jaccard’s coefficient and UPGMA clustering analysis. The average Jaccard’s similarity coefficient was 0.15 (of all pairwise combinations), indicating high genetic diversity in the JEP collection. Using the genetic distance, a neighbour joining tree was constructed that groups genetically similar accessions and separates genetically dissimilar accessions (Figure 1). A group of 70 accessions, mainly from Asia and Africa, did not show molecular polymorphisms for any of the 190 DNA markers for which the other accessions were polymorphic, which indicates that these accessions are genetically identical for these DNA markers. The other accessions from Asia, Africa and South America showed more polymorphisms, but are nonetheless highly genetically similar to the group of 70 accessions that were genetically identical. In contrast, a high level of polymorphism with these DNA markers was found for the accessions from Central America (Figure 1).


High level of molecular and phenotypic biodiversity in Jatropha curcas from Central America compared to Africa, Asia and South America.

Montes Osorio LR, Torres Salvador AF, Jongschaap RE, Azurdia Perez CA, Berduo Sandoval JE, Trindade LM, Visser RG, van Loo EN - BMC Plant Biol. (2014)

UPGMA cluster analysis of 133 J. curcas accessions of the JEP germplasm collection using the Jaccard’s similarity index. Colours indicate the origin of the accessions. Groups A and B were indicated by structure 2.3 (k = 2).
© Copyright Policy - open-access
Related In: Results  -  Collection

License
Show All Figures
getmorefigures.php?uid=PMC3987055&req=5

Figure 1: UPGMA cluster analysis of 133 J. curcas accessions of the JEP germplasm collection using the Jaccard’s similarity index. Colours indicate the origin of the accessions. Groups A and B were indicated by structure 2.3 (k = 2).
Mentions: The markers scores of 190 DNA markers were used to determine the genetic distances between 182 accessions in the JEP collection using Jaccard’s coefficient and UPGMA clustering analysis. The average Jaccard’s similarity coefficient was 0.15 (of all pairwise combinations), indicating high genetic diversity in the JEP collection. Using the genetic distance, a neighbour joining tree was constructed that groups genetically similar accessions and separates genetically dissimilar accessions (Figure 1). A group of 70 accessions, mainly from Asia and Africa, did not show molecular polymorphisms for any of the 190 DNA markers for which the other accessions were polymorphic, which indicates that these accessions are genetically identical for these DNA markers. The other accessions from Asia, Africa and South America showed more polymorphisms, but are nonetheless highly genetically similar to the group of 70 accessions that were genetically identical. In contrast, a high level of polymorphism with these DNA markers was found for the accessions from Central America (Figure 1).

Bottom Line: Accessions from the Central American population contain alleles that were not found in the accessions from other populations.A high level of genetic variation was found on early growth traits and on components of the relative growth rate (specific leaf area, leaf weight, leaf weight ratio and net assimilation rate) as indicated by significant differences between accessions and by the high heritability values (50-88%).Some variation in early growth traits was found within a group of accessions from Asia and Africa, while these accessions did not differ in a single DNA-marker, possibly indicating epigenetic variation.

View Article: PubMed Central - HTML - PubMed

Affiliation: Plant Breeding, Wageningen University and Research Centre, PO Box 386, 6700 AJ Wageningen, The Netherlands. robert.vanloo@wur.nl.

ABSTRACT

Background: The main bottleneck to elevate jatropha (Jatropha curcas L.) from a wild species to a profitable biodiesel crop is the low genetic and phenotypic variation found in different regions of the world, hampering efficient plant breeding for productivity traits. In this study, 182 accessions from Asia (91), Africa (35), South America (9) and Central America (47) were evaluated at genetic and phenotypic level to find genetic variation and important traits for oilseed production.

Results: Genetic variation was assessed with SSR (Simple Sequence Repeat), TRAP (Target Region Amplification Polymorphism) and AFLP (Amplified fragment length polymorphism) techniques. Phenotypic variation included seed morphological characteristics, seed oil content and fatty acid composition and early growth traits. Jaccard's similarity and cluster analysis by UPGM (Unweighted Paired Group Method) with arithmetic mean and PCA (Principle Component Analysis) indicated higher variability in Central American accessions compared to Asian, African and South American accessions. Polymorphism Information Content (PIC) values ranged from 0 to 0.65. In the set of Central American accessions. PIC values were higher than in other regions. Accessions from the Central American population contain alleles that were not found in the accessions from other populations. Analysis of Molecular Variance (AMOVA; P < 0.0001) indicated high genetic variation within regions (81.7%) and low variation across regions (18.3%). A high level of genetic variation was found on early growth traits and on components of the relative growth rate (specific leaf area, leaf weight, leaf weight ratio and net assimilation rate) as indicated by significant differences between accessions and by the high heritability values (50-88%). The fatty acid composition of jatropha oil significantly differed (P < 0.05) between regions.

Conclusions: The pool of Central American accessions showed very large genetic variation as assessed by DNA-marker variation compared to accessions from other regions. Central American accessions also showed the highest phenotypic variation and should be considered as the most important source for plant breeding. Some variation in early growth traits was found within a group of accessions from Asia and Africa, while these accessions did not differ in a single DNA-marker, possibly indicating epigenetic variation.

Show MeSH
Related in: MedlinePlus