Molecular phylogenetics of the Australian acacias of subg. Phyllodineae (Fabaceae: Mimosoideae) based on the trnK intron

2003 ◽  
Vol 51 (2) ◽  
pp. 167 ◽  
Author(s):  
Joseph T. Miller ◽  
Rose Andrew ◽  
Randall J. Bayer
Keyword(s):  
Dna Sequences ◽  
Molecular Phylogenetics ◽  
Sequence Divergence ◽  
Large Numbers ◽  
Close Relationship ◽  
Trnk Intron ◽  
Species Groups ◽  
Morphological Species ◽  
Sectional Classification ◽  
Relationship Of

With over 960 species, Acacia is the largest genus of plants in Australia with all but nine of these species classified as subgenus Phyllodineae. DNA sequences for the chloroplast trnK region were sequenced for over 100 species to test sectional classification and survey species relationships within this subgenus. Only one of the seven recognised sections was found to be monophyletic; however, the close relationship of sect. Botrycephalae to certain racemose, uninerved species of sect. Phyllodineae is confirmed. Support is found for an expanded version of Vassal's Pulchelloidea, with the addition of sect. Lycopodiifoliae and several members of sect. Phyllodineae. These species, while morphologically distinct in adult foliage, possess similar seedling characteristics. The multinerved species are unresolved, indicating a rapid morphological radiation with little chloroplast sequence divergence among these species. The low levels of sequence divergence, large numbers of morphological species groups and the adaptive radiation of the group are discussed.

Molecular phylogenetics of species of Bulbophyllum sect. Trias (Orchidaceae; Epidendroideae; Malaxidae) based on nrITS and plastid rbcL and matK

Phytotaxa ◽  
2015 ◽  
Vol 226 (1) ◽  
pp. 1 ◽  
Author(s):  
Passorn Wonnapinij ◽  
Ajaraporn Sriboonlert
Keyword(s):  
Dna Sequences ◽  
Related Species ◽  
Phylogenetic Relationships ◽  
Internal Transcribed Spacer ◽  
Molecular Phylogenetics ◽  
Nuclear Region ◽  
Closely Related Species ◽  
Vegetative Characters ◽  
Relationship Of ◽  
The Relationship

Phylogenetic relationships among species of Bulbophyllum sect. Trias and related taxa in Bulbophyllum has not been previously studied due to scarcity of appropriate samples. In this study, we aimed to assess the relationship of these taxa and investigate interspecific relationships of these orchids using DNA sequences from two plastid genes, rbcL and matK, and one nuclear region, nuclear ribosomal internal transcribed spacer, nrITS. Our results showed that all Bulbophyllum sect. Trias species were embedded among other groups of Bulbophyllum, supporting the already published transfer of Trias to synonymy of Bulbophyllum. All trees revealed that the Indochinese sect. Trias form a monophyletic group that could be divided into three groups coincident with their vegetative characters. This study further shows that nrITS sequences can be sufficient for inferring phylogenetic relationship among Trias species, although this marker and the combination of this plus the plastid genes are not able to distinguish the differences between some closely related species.

scholarly journals Comparative Analysis of the Complete Chloroplast Genomes in Allium Subgenus Cyathophora (Amaryllidaceae): Phylogenetic Relationship and Adaptive Evolution

2020 ◽  
Vol 2020 ◽  
pp. 1-17 ◽  
Author(s):  
Xin Yang ◽  
Deng-Feng Xie ◽  
Jun-Pei Chen ◽  
Song-Dong Zhou ◽  
Yan Yu ◽  
...  
Keyword(s):  
Chloroplast Genome ◽  
Phylogenetic Relationship ◽  
Dna Sequences ◽  
Molecular Phylogenetics ◽  
Gc Content ◽  
Intergenic Spacer ◽  
Living Environment ◽  
Complete Chloroplast Genome ◽  
Chloroplast Genomes ◽  
Relationship Of

Recent advances in molecular phylogenetics provide us with information of Allium L. taxonomy and evolution, such as the subgenus Cyathophora, which is monophyletic and contains five species. However, previous studies detected distinct incongruence between the nrDNA and cpDNA phylogenies, and the interspecies relationships of this subgenus need to be furtherly resolved. In our study, we newly assembled the whole chloroplast genome of four species in subgenus Cyathophora and two allied Allium species. The complete cp genomes were found to possess a quadripartite structure, and the genome size ranged from 152,913 to 154,174 bp. Among these cp genomes, there were subtle differences in the gene order, gene content, and GC content. Seven hotspot regions (infA, rps16, rps15, ndhF, trnG-UCC, trnC-GCA, and trnK-UUU) with nucleotide diversity greater than 0.02 were discovered. The selection analysis showed that some genes have elevated Ka/Ks ratios. Phylogenetic analysis depended on the complete chloroplast genome (CCG), and the intergenic spacer regions (IGS) and coding DNA sequences (CDS) showed same topologies with high support, which revealed that subgenus Cyathophora was a monophyletic group, containing four species, and A. cyathophorum var. farreri was sister to A. spicatum with 100% bootstrap value. Our study revealed selective pressure may exert effect on several genes of the six Allium species, which may be useful for them to adapt to their specific living environment. We have well resolved the phylogenetic relationship of species in the subgenus Cyathophora, which will contribute to future evolutionary studies or phylogeographic analysis of Allium.

Phylogenetics and systematics of Angiostrongylus lungworms and related taxa (Nematoda: Metastrongyloidea) inferred from the nuclear small subunit (SSU) ribosomal DNA sequences

2014 ◽  
Vol 89 (3) ◽  
pp. 317-325 ◽  
Author(s):  
P. Eamsobhana ◽  
P.E. Lim ◽  
H.S. Yong
Keyword(s):  
Dna Sequences ◽  
Small Subunit ◽  
Ssu Rdna ◽  
Supporting Evidence ◽  
Family Status ◽  
Rdna Sequences ◽  
The Family ◽  
Family Level ◽  
Close Relationship ◽  
Relationship Of

AbstractThe Angiostrongylus lungworms are of public health and veterinary concern in many countries. At the family level, the Angiostrongylus lungworms have been included in the family Angiostrongylidae or the family Metastrongylidae. The present study was undertaken to determine the usefulness and suitability of the nuclear 18S (small subunit, SSU) rDNA sequences for differentiating various taxa of the genus Angiostrongylus, as well as to determine the systematics and phylogenetic relationship of Angiostrongylus species and other metastrongyloid taxa. This study revealed six 18S (SSU) haplotypes in A. cantonensis, indicating considerable genetic diversity. The uncorrected pairwise ‘p’ distances among A. cantonensis ranged from 0 to 0.86%. The 18S (SSU) rDNA sequences unequivocally distinguished the five Angiostrongylus species, confirmed the close relationship of A. cantonensis and A. malaysiensis and that of A. costaricensis and A. dujardini, and were consistent with the family status of Angiostrongylidae and Metastrongylidae. In all cases, the congeneric metastrongyloid species clustered together. There was no supporting evidence to include the genus Skrjabingylus as a member of Metastrongylidae. The genera Aelurostrongylus and Didelphostrongylus were not recovered with Angiostrongylus, indicating polyphyly of the Angiostrongylidae. Of the currently recognized families of Metastrongyloidea, only Crenosomatidae appeared to be monophyletic. In view of the unsettled questions regarding the phylogenetic relationships of various taxa of the metastrongyloid worms, further analyses using more markers and more taxa are warranted.

Phylogenetic Relationship of Ramie and Its Wild Relatives Based on Cytoge-netics and DNA Sequences

2009 ◽  
Vol 35 (10) ◽  
pp. 1778-1790
Author(s):  
Liang LIAO ◽  
Tong-Jian LI ◽  
Zhong-Lai LIU ◽  
Hui-Sheng DENG ◽  
Ling-Ling XU ◽  
...  
Keyword(s):  
Phylogenetic Relationship ◽  
Dna Sequences ◽  
Wild Relatives ◽  
Relationship Of

scholarly journals An Investigation of the Relationship between Cyniclomyces guttulatus and Rabbit Diarrhoea

Pathogens ◽  
2021 ◽  
Vol 10 (7) ◽  
pp. 880
Author(s):  
Tuanyuan Shi ◽  
Xinlei Yan ◽  
Hongchao Sun ◽  
Yuan Fu ◽  
Lili Hao ◽  
...  
Keyword(s):  
New Zealand ◽  
Body Weight Gain ◽  
Animal Experiments ◽  
Zealand White Rabbit ◽  
Opportunistic Pathogen ◽  
Large Numbers ◽  
New Zealand White Rabbits ◽  
Positive Rate ◽  
Relationship Of ◽  
The Relationship

Cyniclomyces guttulatus is usually recognised as an inhabitant of the gastrointestinal (GI) tract in rabbits. However, large numbers of C. guttulatus are often detected in the faeces of diarrhoeic rabbits. The relationship of C. guttulatus with rabbit diarrhoea needs to be clearly identified. In this study, a C. guttulatus Zhejiang strain was isolated from a New Zealand White rabbit with severe diarrhoea and then inoculated into SPF New Zealand white rabbits alone or co-inoculated with Eimeriaintestinalis, another kind of pathogen in rabbits. Our results showed that the optimal culture medium pH and temperature for this yeast were pH 4.5 and 40–42 °C, respectively. The sequence lengths of the 18S and 26S ribosomal DNA fragments were 1559 bp and 632 bp, respectively, and showed 99.8% homology with the 18S ribosomal sequence of the NRRL Y-17561 isolate from dogs and 100% homology with the 26S ribosomal sequence of DPA-CGR1 and CGDPA-GP1 isolates from rabbits and guinea pigs, respectively. In animal experiments, the C. guttulatus Zhejiang strain was not pathogenic to healthy rabbits, even when 1 × 108 vegetative cells were used per rabbit. Surprisingly, rabbits inoculated with yeast showed a slightly better body weight gain and higher food intake. However, SPF rabbits co-inoculated with C. guttulatus and E. intestinalis developed more severe coccidiosis than rabbits inoculated with C. guttulatus or E. intestinalis alone. In addition, we surveyed the prevalence of C. guttulatus in rabbits and found that the positive rate was 83% in Zhejiang Province. In summary, the results indicated that C. guttulatus alone is not pathogenic to healthy rabbits, although might be an opportunistic pathogen when the digestive tract is damaged by other pathogens, such as coccidia.

Discovery of New Genera Challenges the Subtribal Classification of Tok-Tok Beetles (Coleoptera: Tenebrionidae: Sepidiini)

2021 ◽  
Vol 5 (2) ◽  
Author(s):  
Olivia M Gearner ◽  
Marcin J Kamiński ◽  
Kojun Kanda ◽  
Kali Swichtenberg ◽  
Aaron D Smith
Keyword(s):  
Dna Sequences ◽  
Species Group ◽  
Phylogenetic Placement ◽  
Darkling Beetles ◽  
Species Groups ◽  
Taxonomic Groups ◽  
Inference Methods ◽  
A New Species ◽  
Coleoptera Tenebrionidae

Abstract Sepidiini is a speciose tribe of desert-inhabiting darkling beetles, which contains a number of poorly defined taxonomic groups and is in need of revision at all taxonomic levels. In this study, two previously unrecognized lineages were discovered, based on morphological traits, among the extremely speciose genera Psammodes Kirby, 1819 (164 species and subspecies) and Ocnodes Fåhraeus, 1870 (144 species and subspecies), namely the Psammodes spinosus species-group and Ocnodes humeralis species-group. In order to test their phylogenetic placement, a phylogeny of the tribe was reconstructed based on analyses of DNA sequences from six nonoverlapping genetic loci (CAD, wg, COI JP, COI BC, COII, and 28S) using Bayesian and maximum likelihood inference methods. The aforementioned, morphologically defined, species-groups were recovered as distinct and well-supported lineages within Molurina + Phanerotomeina and are interpreted as independent genera, respectively, Tibiocnodes Gearner & Kamiński gen. nov. and Tuberocnodes Gearner & Kamiński gen. nov. A new species, Tuberocnodes synhimboides Gearner & Kamiński sp. nov., is also described. Furthermore, as the recovered phylogenetic placement of Tibiocnodes and Tuberocnodes undermines the monophyly of Molurina and Phanerotomeina, an analysis of the available diagnostic characters for those subtribes is also performed. As a consequence, Phanerotomeina is considered as a synonym of the newly redefined Molurina sens. nov. Finally, spectrograms of vibrations produced by substrate tapping of two Molurina species, Toktokkus vialis (Burchell, 1822) and T. synhimboides, are presented.

NOTES ON THE GENUS PROTARCHOIDES (HYMEN., ICHNEUMONIDAE)

1938 ◽  
Vol 70 (11) ◽  
pp. 230-232 ◽  
Author(s):  
C. Stuart Walley
Keyword(s):  
North American ◽  
North American Species ◽  
Close Relationship ◽  
Relationship Of

The following notes were assembled in arranging the Protarchoides material in the National Collection. In establishing the identity of Protarchoides mellipes (Prov.) it has been found necessary to synonymize one species. A species allied to mellipes is described as new and a table is provided for the separation of the four known North American species. The recording of Trichiosoma as host for a member of this genus is further evidence of the close relationship of the genus with Protarchus Foer.

scholarly journals Study of the 49 kDa excretory-secretory protein gene of Trichinella nativa and Trichinella spiralis

2007 ◽  
Vol 44 (3) ◽  
pp. 120-125 ◽  
Author(s):  
B. Zheng ◽  
L. Xiao ◽  
X. Wang ◽  
D. Li ◽  
Y. Lu ◽  
...  
Keyword(s):  
Prokaryotic Expression ◽  
Protein Gene ◽  
Trichinella Spiralis ◽  
Secretory Protein ◽  
Rt Pcr ◽  
Prokaryotic Expression Vector ◽  
Close Relationship ◽  
Bamhi Site ◽  
Relationship Of ◽  
Trichinella Nativa

AbstractTo study the function of the 49 kDa excretory-secretory (ES) protein gene (P49) of Trichinella, the genes was amplified by RT-PCR from RNA of Trichinella spiralis and Trichinella nativa and several Chinese Trichinella isolates of domestic animals, and sequenced after being cloned. The amplified products of these parasites produced bands of about 950 bp. The 97.2 % to 100 % nucleotides identity and 94.3 % to 100 % identity of deduced amino acids among P49 gene of these Trichinella strains showed the close relationship of these parasites. The P49 gene of T. nativa was cloned into the BamHI site of the prokaryotic expression vector pET-30a, and the recombinant vector was expressed. The expressed product was 40.8 kDa in size. In Western blot analysis, the expressed product was reactive to sera of mice infected with T. nativa, T. spiralis and their Chinese geographical strains.

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