English (United Kingdom)

https://curated-unify.zendy.io/wp-json/zendy-region/v1/featured_content/oa?rat=en

https://curated-unify.zendy.io/wp-json/zendy-region/v1/highlighted_journal/

Global: Zendy Plus annual

Presents the access of premium content as premium feature

Premium Content

Presents the keyphrase highlighting as premium feature

Keyphrase Highlighting

Presents the summarisation as premium feature

Summarisation

Insights

Presents the pdf analysis as premium feature

PDF Analysis

Presents the zaia usage as premium feature

ZAIA

Global: Zendy Plus monthly

Global: Zendy Tools annual

Global: Zendy Tools monthly

Global: Zendy Free Plan

Background  Epilithic sister genera  Oresitrophe  and  Mukdenia  (Saxifragaceae) have an epilithic habitat (rocky slopes) and a parapatric distribution in East Asia, which makes them an ideal model for a more comprehensive understanding of the demographic and divergence history and the influence of climate changes in East Asia. However, the genetic background and resources for these two genera are scarce.    Results  The complete chloroplast (cp) genomes of two  Oresitrophe rupifraga  and one  Mukdenia rossii  individuals were reconstructed and comparative analyses were conducted to examine the evolutionary pattern of chloroplast genomes in Saxifragaceae. The cp genomes ranged from 156,738 bp to 156,960 bp in length and had a typical quadripartite structure with a conserved genome arrangement. Comparative analysis revealed the intron of  rpl 2 has been lost in  Heuchera parviflora ,  Tiarella polyphylla ,  M. rossii  and  O. rupifraga  but presents in the reference genome of  Penthorum chinense . Seven cp hotspot regions ( trn H- psb A,  trn R- atp A,  atp I- rps 2,  rps 2- rpo C2,  pet N- psb M,  rps 4- trn T and  rpl 33- rps 18) were identified between  Oresitrophe  and  Mukdenia , while four hotspots ( trn Q- psb K,  trn R- atp A,  trn S- psb Z and  rpl 33- rps 18) were identified within  Oresitrophe . In addition, 24 polymorphic cpSSR loci were found between  Oresitrophe  and  Mukdenia . Most importantly, we successfully developed 126 intergeneric polymorphic gSSR markers between  Oresitrophe  and  Mukdenia , as well as 452 intrageneric ones within  Oresitrophe . Twelve randomly selected intergeneric gSSRs have shown that these two genera exhibit a significant genetic structure.    Conclusions  In this study, we conducted genome skimming for  Oresitrophe rupifraga  and  Mukdenia rossii . Using these data, we were able to not only assemble their complete chloroplast genomes, but also develop abundant genetic resources (cp hotspots, cpSSRs, polymorphic gSSRs). The genomic patterns and genetic resources presented here will contribute to further studies on population genetics, phylogeny and conservation biology in Saxifragaceae.    Electronic supplementary material  The online version of this article (10.1186/s12864-018-4633-x) contains supplementary material, which is available to authorized users.

bmc genomics

Chloroplast genome analyses and genomic resource development for epilithic sister genera Oresitrophe and Mukdenia (Saxifragaceae), using genome skimming data