Data from: Cost-effective enrichment hybridization capture of chloroplast genomes at deep multiplexing levels for population genetics and phylogeography studies

Mariac C, Scarcelli N, Pouzadou J, Barnaud A, Billot C, Faye A, Maillol V, Santoni S, Vigouroux Y, Couvreur TLP

Date Published: March 27, 2014

DOI: http://dx.doi.org/10.5061/dryad.t6b05

 

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Title replace95bam_and_ref
Downloaded 39 times
Download 95bam_and_ref.zip (1.821 Gb)
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Title De novo assembly Chloroplast of Dioscorea rotundata
Downloaded 37 times
Description The software MITObim (v. 1.5, Hahn et al. 2013) was used to reconstruct de novo plastid genomes. We used as initial references: Dioscorea elephantipes (EF380353.1)
Download cpRotundatav1_28itcp.fasta (158.0 Kb)
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Title De novo assembly Chloroplast of Digitaria excilis
Downloaded 5 times
Description The software MITObim (v. 1.5, Hahn et al. 2013) was used to reconstruct de novo plastid genomes. We used as initial references: Pennisetum glaucum
Download cpFONIO-18itv1.fasta (144.7 Kb)
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Title De novo assembly Chloroplast of Cenchrus americanus
Downloaded 7 times
Description The software MITObim (v. 1.5, Hahn et al. 2013) was used to reconstruct de novo plastid genomes. We used as initial references: Zea mays
Download cpmilv3100it.fasta (143.0 Kb)
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Title RAM63_forward_500k
Downloaded 10 times
Description This file contain 500k forward reads Illumina TrueSeq v3 75 PE, from RAM63, an O. sativa ssp indica.These data have been used to validate the assembly method.
Download RAM63_forward_500k.fastq (112.8 Mb)
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Title RAM63_reverse_500k
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When using this data, please cite the original publication:

Mariac C, Scarcelli N, Pouzadou J, Barnaud A, Billot C, Faye A, Kougbeadjo A, Maillol V, Martin G, Sabot F, Santoni S, Vigouroux Y, Couvreur TLP (2014) Cost-effective enrichment hybridization capture of chloroplast genomes at deep multiplexing levels for population genetics and phylogeography studies. Molecular Ecology Resources 14(6): 1103-1113. http://dx.doi.org/10.1111/1755-0998.12258

Additionally, please cite the Dryad data package:

Mariac C, Scarcelli N, Pouzadou J, Barnaud A, Billot C, Faye A, Maillol V, Santoni S, Vigouroux Y, Couvreur TLP (2014) Data from: Cost-effective enrichment hybridization capture of chloroplast genomes at deep multiplexing levels for population genetics and phylogeography studies. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.t6b05
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