Dan-Na Yu

Prof. Dr. Dan-Na Yu

orcid

Research Focus & Metrics

Academic Career Length

15Years (2012-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

View All Publications
27 February 2018 in BMC Ecology and Evolution
Verified
Journal Article
Open access
PDF file
JZJia-Yong Zhang
Jia-Yong Zhang
LZLe-Ping Zhang
Le-Ping Zhang
DYDan-Na Yu
Dan-Na Yu
KSKenneth B. Storey
Kenneth B. Storey
RZRong-Quan Zheng
Rong-Quan Zheng
Complete mitochondrial (mt) genomes have been used extensively to test hypotheses about microevolution and to study population structure, phylogeography, and phylogenetic relationships of Anura at various taxonomic levels. Large-scale mt genomic reorganizations have been observed among many fork-tongued frogs (family Dicroglossidae). The relationships among Dicroglossidae and validation of the genus Feirana are still problematic. Hence, we sequenced the complete mt genomes of Nanorana taihangnica (=F. taihangnica) and N. yunnanensis as well as partial mt genomes of six Quasipaa species (dicroglossid taxa), two Odorrana and two Amolops species (Ranidae), and one Rhacophorus species (Rhacophoridae) in order to identify unknown mt gene rearrangements, to investigate the validity of the genus Feirana, and to test the phylogenetic relationship of Dicroglossidae. In the mt genome of N. taihangnica two trnM genes, two trnP genes and two control regions were found. In addition, the trnA, trnN, trnC, and trnQ genes were translocated from their typical positions. In the mt genome of N. yunnanensis, three control regions were found and eight genes (ND6, trnP, trnQ, trnA, trnN, trnC, trnY and trnS genes) in the L-stand were translocated from their typical position and grouped together. We also found intraspecific rearrangement of the mitochondrial genomes in N. taihangnica and Quasipaa boulengeri. In phylogenetic trees, the genus Feirana nested deeply within the clade of genus Nanorana, indicating that the genus Feirana may be a synonym to Nanorana. Ranidae as a sister clade to Dicroglossidae and the clade of (Ranidae + Dicroglossidae) as a sister clade to (Mantellidae + Rhacophoridae) were well supported in BI analysis but low bootstrap in ML analysis. We found that the gene arrangements of N. taihangnica and N. yunnanensis differed from other published dicroglossid mt genomes. The gene arrangements in N. taihangnica and N. yunnanensis could be explained by the Tandem Duplication and Random Loss (TDRL) and the Dimer-Mitogenome and Non-Random Loss (DMNR) models, respectively. The invalidation of the genus Feirana is supported in this study.

1 May 2018 in International Journal of Biological Macromolecules
Verified
Journal Article
Closed access
LZLe-Ping Zhang
Le-Ping Zhang
DYDan-Na Yu
Dan-Na Yu
KSKenneth B. Storey
Kenneth B. Storey
HCHong-Yi Cheng
Hong-Yi Cheng
JZJia-Yong Zhang
Jia-Yong Zhang


14 November 2018 in PeerJ
Verified
Journal Article
Open access
PDF file
XGXin-Yan Gao
Xin-Yan Gao
YCYin-Yin Cai
Yin-Yin Cai
DYDan-Na Yu
Dan-Na Yu
Kenneth B StoreyKenneth B Storey
Kenneth B Storey
JZJia-Yong Zhang
Jia-Yong Zhang
The owlflies (Family Ascalaphidae) belong to the Neuroptera but are often mistaken as dragonflies because of morphological characters. To date, only three mitochondrial genomes of Ascalaphidae, namelyLibelloides macaronius;Ascaloptynx appendiculatus;Ascalohybris subjacens, are published in GenBank, meaning that they are greatly under-represented in comparison with the 430 described species reported in this family. In this study, we sequenced and described the complete mitochondrial genome ofSuhpalacsa longialata(Neuroptera, Ascalaphidae). The total length of theS. longialatamitogenome was 15,911 bp, which is the longest known to date among the available family members of Ascalaphidae. However, the size of each gene was similar to the other three Ascalaphidae species. TheS. longialatamitogenome included a transposition of tRNACysand tRNATrpgenes and formed an unusual gene arrangement tRNACys-tRNATrp-tRNATyr(CWY). It is likely that the transposition occurred by a duplication of both genes followed by random loss of partial duplicated genes. The nucleotide composition of theS. longialatamitogenome was as follows:A= 41.0%,T= 33.8%,C= 15.5%,G= 9.7%. Both Bayesian inference and ML analyses strongly supportedS. longialataas a sister clade to (Ascalohybris subjacens+L. macaronius), and indicated that Ascalaphidae is not monophyletic.

14 November 2021 in Insects
Verified
Journal Article
Open access
PDF file
SASam Pedro Galilee Ayivi
Sam Pedro Galilee Ayivi
YTYao Tong
Yao Tong
Kenneth B StoreyKenneth B Storey
Kenneth B Storey
DYDan-Na Yu
Dan-Na Yu
JZJia-Yong Zhang
Jia-Yong Zhang
The availability of next-generation sequencing (NGS) in recent years has facilitated a revolution in the availability of mitochondrial (mt) genome sequences. The mt genome is a powerful tool for comparative studies and resolving the phylogenetic relationships among insect lineages. The mt genomes of phytophagous scarabs of the subfamilies Cetoniinae and Dynastinae were under-represented in GenBank. Previous research found that the subfamily Rutelinae was recovered as a paraphyletic group because the few representatives of the subfamily Dynastinae clustered into Rutelinae, but the subfamily position of Dynastinae was still unclear. In the present study, we sequenced 18 mt genomes from Dynastinae and Cetoniinae using next-generation sequencing (NGS) to re-assess the phylogenetic relationships within Scarabaeidae. All sequenced mt genomes contained 37 sets of genes (13 protein-coding genes, 22 tRNAs, and two ribosomal RNAs), with one long control region, but the gene order was not the same between Cetoniinae and Dynastinae species. All mt genomes of Dynastinae species showed the same gene rearrangement of trnQ-NCR-trnI-trnM, whereas all mt genomes of Cetoniinae species showed the ancestral insect gene order of trnI-trnQ-trnM. Phylogenetic analyses (IQ-tree and MrBayes) were conducted using 13 protein-coding genes based on nucleotide and amino acid datasets. In the ML and BI trees, we recovered the monophyly of Rutelinae, Cetoniinae, Dynastinae, and Sericinae, and the non-monophyly of Melolonthinae. Cetoniinae was shown to be a sister clade to (Dynastinae + Rutelinae).

23 August 2019 in PeerJ
Verified
Journal Article
Open access
PDF file
YCYin-Yin Cai
Yin-Yin Cai
SSShi-Qi Shen
Shi-Qi Shen
LLLi-Xu Lu
Li-Xu Lu
Kenneth B StoreyKenneth B Storey
Kenneth B Storey
DYDan-Na Yu
Dan-Na Yu
JZJia-Yong Zhang
Jia-Yong Zhang
The family Pyxicephalidae including two subfamilies (Cacosterninae and Pyxicephalinae) is an ecologically important group of frogs distributed in sub-Saharan Africa. However, its phylogenetic position among the Anura has remained uncertain. The present study determined the complete mitochondrial genome sequence ofPyxicephalus adspersus, the first representative mitochondrial genome from the Pyxicephalinae, and reconstructed the phylogenetic relationships within Ranoidae using 10 mitochondrial protein-coding genes of 59 frog species. TheP. adspersusmitochondrial genome showed major gene rearrangement and an exceptionally long length that is not shared with other Ranoidae species. The genome is 24,317 bp in length, and contains 15 protein-coding genes (including extraCOX3andCyt bgenes), four rRNA genes (including extra12S rRNAand16S rRNAgenes), 29 tRNA genes (including extratRNALeu(UAG),tRNALeu(UUR),tRNAThr,tRNAPro,tRNAPhe,tRNAVal,tRNAGlngenes) and two control regions (CRs). The Dimer-Mitogenome and Tandem duplication and random loss models were used to explain these gene arrangements. Finally, both Bayesian inference and maximum likelihood analyses supported the conclusion that Pyxicephalidae was monophyletic and that Pyxicephalidae was the sister clade of (Petropedetidae + Ptychadenidae).