Targeted enrichment of novel chloroplast-based probes reveals a large-scale phylogeny of 412 bamboos
نویسندگان
چکیده
Abstract Background The subfamily Bambusoideae belongs to the grass family Poaceae and has significant roles in culture, economy, ecology. However, phylogenetic relationships based on large-scale chloroplast genomes (CpGenomes) were elusive. Moreover, most of DNA sequencing methods cannot meet requirements CpGenome sequencing, which greatly limits impedes in-depth research plant genetics evolution. Results To develop a set bamboo probes, we used 99 high-quality CpGenomes with 6 as representative species for probe design, assembled 15 M unique sequences final pan-chloroplast genome. A total 180,519 probes fragments designed synthesized by novel hybridization-based targeted enrichment approach. Another 468 selected test data verify quality newly efficiency capture. We then successfully applied synthesize, enrich, assemble 358 non-redundant woody China. Evaluation analysis showed may be applicable chloroplasts Magnoliales, Pinales, Poales et al. reconstructed tree 412 bamboos (358 in-house 54 published), supporting non-monophyletic lineage genus Phyllostachys . Additionally, shared our uploading dataset into CNGB ( https://db.cngb.org/search/project/CNP0000502/ ) enrich resources promote development phylogenetics. Conclusions pipeline its performance recommended an inexpensive, high-throughput, time-saving efficient strategy, can facilitate phylogenetics green plants.
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ژورنال
عنوان ژورنال: BMC Plant Biology
سال: 2021
ISSN: ['1471-2229']
DOI: https://doi.org/10.1186/s12870-020-02779-5