Chloroplast DNA variation and parentage analysis in 55 apples

Savolainen, Vincent; Corbaz, R.; Moncousin, Charles; Spichiger, Rodolphe-Edouard; Manen, Jean‐François

doi:10.1007/bf00222934

Cited by 26 publications

(21 citation statements)

References 20 publications

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“…Primers for non-coding regions of the chloroplast genome, which together cover approximately 20 kb of the chloroplast genome, were from Taberlet et al (1991), Arnold et al (1991), Tsumura et al (1995), Demesure et al (1995), Savolainen et al (1995) and Liston and Wheeler (1994). Amplification was performed in a water cooled thermocycler (Autogene) with 4.5 min denaturation at 92?C, 35 cycles of 24 sec at 92?C, 2 min annealing at 55.5?C and 24 sec extension at 72?C.…”

Section: Methodsmentioning

confidence: 99%

Criteria for Sampling in Allium Based on Chloroplast DNA PCR-RFLP'S

Mes¹,

Friesen²,

Fritsch³

et al. 1997

Systematic Botany

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Section: Methodsmentioning

confidence: 99%

Criteria for Sampling in Allium Based on Chloroplast DNA PCR-RFLP'S

Mes¹,

Friesen²,

Fritsch³

et al. 1997

Systematic Botany

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“…Probably, sago palm from Papua moved to Sumatra which carried out by people when they moved from Papua to Sumatra in the past and formed a new population in the new places. This prediction may occur because RAPD markers which used did not show as conservative as cpDNA markers which uniparental inherited (Ishikawa et al, 1992;Savolainen et al, 1995). RAPD markers are molecular nuclear genome which related with DNA recombinant process and biparentally inherited (Viard et al, 2001).…”

Section: A 6bmentioning

confidence: 96%

Genetic Relationship of Sago Palm (Metroxylon sagu Rottb.) in Indonesia Based on RAPD Markers

et al. 2009

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The areas of sago palm (Metroxylon sagu Rottb.) forest and cultivation in the world were estimated two million hectares and predicted 50% of that areas located in Indonesia. Distribution of sago palm areas in Indonesia is not evenly distributed as well as their diversities. Information of plant genetic diversities and genetic relationship is very important to be used for germplasm collection and conservation. The objectives of research were revealed the genetic relationships of sago palm in Indonesia based on RAPD molecular markers. Fragments amplification PCR products were separated on 1.7% agarose gel, fixation in Ethidium Bromide, and visualized by using Densitograph. Genetic relationships of sago palm in Indonesia showed that sample in individual level were inclined mixed among the other and just formed three groups. Genetic relationship of sago palm population showed that samples populations from Jayapura, Serui, Sorong, Pontianak, and Selat Panjang were closely related each others based on phylogenetic analysis and formed clustered in one group, event though inclined to be formed two subgroups. Populations from Manokwari, Bogor, Ambon and Palopo were closed related each others, they were in one group. Genetic relationships in the level of island were showed sago palm from Papua, Kalimantan, and Sumatra closely related. Sago palms from Maluku were closed related with sago palm from Sulawesi whereas sago palm from Java separated from the others. Based on this observation we proposed that Papua as centre of sago palm diversities and the origin of sago palm in Indonesia. This research informed us the best way to decide sago palm places for germplasm of sago palm conservation activity.

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“…Papua could be the origin and center of sago palm diversity because it has the highest specific haplotypes and the highest numbers of haplotypes, as well as the existence of wild types. Haplotypes described in this study must have existed in the distant past because cpDNA markers exhibit highly conservative sequences (Provan et al 2001), very low mutation rates which range from 3.2 × 10 −5 to 7.9 × 10 −5 (Provan et al 1999), and no recombinant DNA (Ishikawa et al 1992;Provan et al 2001) and are uniparentally inherited (Savolainen et al 1995;Viard et al 2001). The highest numbers of haplotypes indicate the highest variation as occurred in populations of Abies alba Mill.…”

Section: Haplotype Identification and Compositionmentioning

confidence: 73%

Sago Palm Genetic Resource Diversity in Indonesia

Abbas

2018

Sago Palm

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Information of genetic diversity is very important in supporting the implementation of genetic resource conservation and plant breeding. This study aims to determine the genetic diversity of 11 sago palm accessions that have been collected by the Sago Research Consortium (SRC), University of Papua (UNIPA). Methods of research were divided into three steps.Step 1 was DNA extraction by using Geneaid DNA plant Mini Kit.Step 2 was PCR amplification fragments DNA by using KAPA2G Robust HotStart polymerases and performed by using Bio-Rad PCR instrument.Step 3 was purified and sequenced DNA by Macrogen Inc. Seoul, Korea. Data analyses were performed by using a MEGA6.06 software. Morphological characteristics in the rosette stage of 11 sago palm accessions were divided into 4 phenotypes only, and several accessions showed the same phenotypes. Based on atp6-2 gene markers, the 11 sago palm accessions had a different genetic characteristic among the others. Genetic distances among 11 sago palm accessions were in the range among 0.22 and 3.01 with an average 1.21 pairwise distant. Phylogenetic construction showed that the genetic relationship of 11 sago palm accessions was clustered into 6 groups. The accession numbers SP001 and SP002 are in group 1, the accession numbers SP003 and SP011 group 2, the accession numbers SP005 and SP007 group 3, the accession number SP009 group 4, the accession numbers SP008 and SP010 group 5, and the accession numbers SP004 and SP006 group 6. Nucleotide sequence alignments of mitochondrial atp6-2 gene and introns were different from each other in 11 accessions.

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Chloroplast DNA variation and parentage analysis in 55 apples

Cited by 26 publications

References 20 publications

Criteria for Sampling in Allium Based on Chloroplast DNA PCR-RFLP'S

Criteria for Sampling in Allium Based on Chloroplast DNA PCR-RFLP'S

Genetic Relationship of Sago Palm (Metroxylon sagu Rottb.) in Indonesia Based on RAPD Markers

Sago Palm Genetic Resource Diversity in Indonesia

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