scholarly journals Using ITS-rDNA and matK gene nucleotide sequences for identification ginseng species in Panax in Phu Xai Lai Leng, Ky Son, Nghe An

2020 ◽  
Vol 18 (1) ◽  
pp. 75-85
Author(s):  
Vu Dinh Duy ◽  
Tran Thi Viet Thanh ◽  
Phan Ke Loc ◽  
Nguyen Minh Tam ◽  
Nguyen Thi Thanh Huong ◽  
...  
Keyword(s):  
Success Rate ◽  
Genetic Distances ◽  
Its Rdna ◽  
Dna Barcodes ◽  
Phylogenetic Taxonomy ◽  
Panax Species ◽  
Pcr Product ◽  
Matk Gene ◽  
Close Relationship ◽  
Relationship Of

DNA barcoding is a useful tool for species identification using standardized genomic DNA fragments. We used DNA barcodes (ITS-rDNA and matK gene) to explore Panax (32 samples collected from Phu Xai Lai Leng mountain and 19 samples collected from medicinal nursery of TH), and to investigate the phylogenetic taxonomy of Panax. In this study, the PCR success rate for ITS-rDNA and matK region was 100%. The success rate of bidirectional sequencing of PCR product was 100% of ITS-rDNA and matK region with length of 616 bp, 1433 bp, respectively. All 32 samples (Panax TB) of Phu Xai Lai Leng have a close relationship with P. stipuleanatus (MLBS = 99%, BPP = 100%). All 19 samples (Panax TH) of medicinal nursery have a close relationship with P. notoginseng (MLBS = 100%, BPP = 100%). Interspecific genetic distances within and among Panax species was varied from 0.2% to 7.9%, average (4%) (ITS-rDNA gene) and 0.1 to 2.9%, average (1.2%) (matK gene). The genetic relationship of species/gender belonging to the Panax genus showed that they have the same evolutionary origin and discovered that new distributed of P. stipuleanatus in Phu Xai Lai Leng mountain in Vietnam.

scholarly journals DNA barcodes and morphology of P. krempfi, P. mekongensis, and P. elongatus

2016 ◽  
Vol 14 (1) ◽  
pp. 29-37 ◽  
Author(s):  
Dương Thúy Yên ◽  
Nguyễn Kiệt ◽  
Bùi Sơn Nên ◽  
Nguyễn Văn Thường ◽  
Nguyễn Bạch Loan ◽  
...  
Keyword(s):  
Dna Barcode ◽  
Morphological Characteristics ◽  
Mekong Delta ◽  
Genetic Distances ◽  
Dna Barcodes ◽  
Gill Rakers ◽  
Coi Sequences ◽  
Relationship Of ◽  
Metric Traits ◽  
I Gene

Three Pangasius species including P. krempfi, P. elongatus and P. mekongensis, are economically important. They can be mis-identified due to similar external appreance at small sizes. This study aimed to distinguish these species based on their differences in DNA barcode, COI (cytochrome c oxidase subunit I) gene, and morphological characteristics. Fish with various sizes (>90 samples/species) were sampled at the lower Mekong delta region. Kimura-2 parameter genetic distances based on COI sequences of three species (15 samples, in which, 4 unique sequences were assigned Genbank accession numbers from KT289877 to KT289880) are relatively high, ranging 9.33 – 12.10 %. Morphological measurements show that coutanble traits including numbers of fin rays and the first gill rakers vary in similar ranges but ratios of metric traits are significantly different among three species (P<0.01). Principle component analysis using metric traits sets three species apart. P. elongatus is characterized by elongated body, long caudal preduncle, large eyes, and retangle palatine tooth plates. P. krempfi differs from P. mekongesis in characteristics on their head. The number of sections, shape and length of barbel are different among three species. Phylogenetic relationship of three species based on morphology and COI sequences indicate that P. krempfi is closer to P. mekongenis rather than P. elongatus, and that the distance between P. mekongenis and P. elongatus is the largest.

scholarly journals Enteritis in an alpaca (Vicugna pacos) associated with a potentially novel adenovirus

2012 ◽  
Vol 24 (5) ◽  
pp. 1000-1003 ◽  
Author(s):  
David F. Twomey ◽  
Sylvia S. Grierson ◽  
Francesca Martelli ◽  
Robert J. Higgins ◽  
Martin Jeffrey
Keyword(s):  
Predicted Amino Acid Sequence ◽  
Nested Polymerase Chain Reaction ◽  
Bovine Adenovirus ◽  
Tissue Sections ◽  
Pcr Product ◽  
Vicugna Pacos ◽  
Close Relationship ◽  
Nucleotide Database ◽  
Polymerase Chain ◽  
Relationship Of

Adenovirus-associated enteritis was diagnosed by histopathology of small intestine in a 2-year-old alpaca ( Vicugna pacos). Electron microscopy confirmed intracytoplasmic and intranuclear adenoviral particles within enterocytes. Nucleic acid was extracted from paraffin-embedded tissue sections, and a pan-adenovirus nested polymerase chain reaction (PCR) assay was employed to target a partial sequence of the polymerase gene. The PCR product (321 bp) was cloned and sequenced. Comparison of the nucleotide sequence against the National Center for Biotechnology Information (NCBI) nucleotide database demonstrated 68% identity with the isolates Canine adenovirus 1 and Bovine adenovirus 3. Comparison of the predicted amino acid sequence against the NCBI database demonstrated 75% identity with Bovine adenovirus 3. Phylogenetic analysis supported the relatively close relationship of this isolate to Bovine adenovirus 3, but the alpaca isolate was sufficiently distant to be considered a potentially novel adenovirus for this species.

Bursaphelenchus gillanii sp. n. (Nematoda: Aphelenchoididae) – a new species of the xylophilus group in packaging wood imported from China

Nematology ◽  
2014 ◽  
Vol 16 (1) ◽  
pp. 53-62 ◽  
Author(s):  
Ute Schönfeld ◽  
Helen Braasch ◽  
Marko Riedel ◽  
Jianfeng Gu
Keyword(s):  
New Species ◽  
Excretory Pore ◽  
Rflp Pattern ◽  
Median Line ◽  
Female Tail ◽  
Pcr Product ◽  
Close Relationship ◽  
Relationship Of ◽  
A New Species

A new Bursaphelenchus species of the xylophilus group was detected in coniferous packaging wood imported with goods from China in 2011. The new species is described herein and compared with other species of the xylophilus group. Bursaphelenchus gillanii sp. n. has a slim body (a = 31 (28-34) and 33 (29-36) in females and males, respectively), c′ = 3.8 (3.2-4.5) and 2.1 (1.7-2.5) in females and males, respectively, a large vulval flap, a 5-7 μm long digitate mucro as a continuation of the female tail, excretory pore at or closely posterior to the median bulb, strongly arcuate spicules, 34 (31-37) μm long as measured along the median line, with prominent pointed rostrum and small cucullus. The ITS-RFLP pattern of the new species obtained by digestion of the PCR product with RsaI, HaeIII, MspI, HinfI and AluI is different from other known Bursaphelenchus species. Results of sequencing the ITS1/2 region demonstrate the close relationship of the new species to B. mucronatus and B. xylophilus.

scholarly journals About Notiophilus Duméril, 1806 (Coleoptera, Carabidae): Species delineation and phylogeny using DNA barcodes

2019 ◽  
Vol 66 (1) ◽  
pp. 63-73 ◽  
Author(s):  
Michael J. Raupach ◽  
Karsten Hannig ◽  
Jérome Morinière ◽  
Lars Hendrich
Keyword(s):  
Phylogenetic Analysis ◽  
North America ◽  
Central Europe ◽  
Dna Barcodes ◽  
Species Delineation ◽  
Close Relationship ◽  
Relationship Of

The genus Notiophilus Duméril, 1806 is a distinctive taxon of small, diurnal and morphologically similar beetles exhibiting large eyes and widened second elytral intervals. In this study we analysed the effectiveness of DNA barcodes to discriminate 67 specimens that represent 8 species of Notiophilus from Central Europe. Interspecific K2P distances below 2.2% were found for N.biguttatus (Fabricius, 1779) and N.quadripunctatus Dejean, 1826, whereas intraspecific distances with values &gt; 2.2% were revealed for N.rufipes Curtis, 1829. An additional phylogenetic analysis of all available species revealed a close relationship of N.directus Casey, 1920, N.semistriatus Say, 1823, N.simulator Fall, 1906 and N.sylvaticus Dejean, 1831, possibly indicating a radiation of these species in North America. Low support values of most other nodes, however, do not allow additional phylogenetic conclusions.

scholarly journals Complete Chloroplast Genome Sequences of Three Aroideae Species (Araceae): Lights into Selective Pressure, Marker Development and Phylogenetic Relationships

2021 ◽  
Author(s):  
Bicong Li ◽  
Tao Liu ◽  
Asjad Ali ◽  
Yao Xiao ◽  
Nan Shan ◽  
...  
Keyword(s):  
Dna Barcodes ◽  
Protein Coding ◽  
Variable Regions ◽  
Complete Chloroplast Genome ◽  
Protein Coding Genes ◽  
Chloroplast Genomes ◽  
Xanthosoma Sagittifolium ◽  
Close Relationship ◽  
Relationship Of ◽  
First Time

Abstract Background : Colocasia gigantea, Caladium bicolor and Xanthosoma sagittifolium are three worldwide famous ornamental and/or vegetable plants in the Araceae family, these species in the subfamily Aroideae are taxonomically perplexing due to shared interspecific morphological traits and variation.Result : This study, for the first time ever, assembled and analyzed complete chloroplast genomes of C. gigantea, C. bicolor and X. sagittifolium with genome sizes of 165,906 bp, 153,149 bp and 165,169 bp in length, respectively. The genomes were composed of conserved quadripartite circular structures with a total of 131 annotated genes, including 8 rRNA, 37 tRNA and 86 protein-coding genes. A comparison within Aroideae showed seven protein-coding genes (accD, ndhF, ndhK, rbcL, rpoC1, rpoC2 and matK) linked to environmental adaptation. Phylogenetic analysis confirmed a close relationship of C. gigantea with C. esculenta and S. colocasiifolia, and the C. bicolor with X. sagittifolium. Furthermore, three DNA barcodes (atpH-atpI + psaC-ndhE, atpH-atpI + trnS-trnG, atpH-atpI + psaC-ndhE + trnS-trnG) harbored highly variable regions to distinguish species in Aroideae subfamily.Conclusion : These results would be beneficial for species identification, phylogenetic relationship, genetic diversity, and potential of germplasm resources in Aroideae.

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.

scholarly journals Genetic Variation Among Colletotrichum graminicola Isolates from Four Hosts Using Isozyme Analysis

Plant Disease ◽  
2004 ◽  
Vol 88 (4) ◽  
pp. 402-406 ◽  
Author(s):  
B. J. Horvath ◽  
J. M. Vargas
Keyword(s):  
Genetic Variation ◽  
Genetic Distance ◽  
Geographic Origin ◽  
Creeping Bentgrass ◽  
Genetic Distances ◽  
Colletotrichum Graminicola ◽  
Annual Bluegrass ◽  
Close Relationship ◽  
Host Origin ◽  
Serious Disease

Anthracnose basal rot (ABR) is a serious disease of turfgrasses that is caused by the pathogen Colletotrichum graminicola. The relationships of isolates causing ABR on turfgrasses to those causing disease on important crop hosts (maize, sorghum) remain unresolved. Genetic variation among isolates from annual bluegrass, creeping bentgrass, maize, and sorghum was evaluated based on host origin and geographic origin. Isozymes were used to estimate the genetic variation of the isolates. Five enzyme systems comprising 16 alleles from 5 loci were used. Allele frequencies, genetic distance, and linkage disequilibrium values were calculated for isolates based on both host and geographic origin. Isolates from creeping bentgrass and annual bluegrass were the most closely related based on Nei's genetic distance, while isolates from maize and sorghum were the most distantly related, consistent with their known species-level relationship. Isolates from annual bluegrass and creeping bentgrass had different genetic distances to isolates from both maize and sorghum. Annual bluegrass isolates from different geographic regions had the smallest genetic distance values observed in this study, indicating a very close relationship regardless of geographic origin. Based on these data, it appears that host origin, not geographic origin, plays a more important role in the genetic diversity of these fungi.

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