scholarly journals Genetic similarities and phylogenetic analysis of Muntjac (Muntiacus spp.) by comparing the nucleotide sequence of 16S rRNA and cytochrome B genome

2023 ◽  
Vol 83 ◽  
Author(s):  
B. M. Khan ◽  
M. Sabir ◽  
M. N. Alyemeni ◽  
P. Kaushik ◽  
M. Saeed ◽  
...  
Keyword(s):  
Nucleotide Sequence ◽  
16S Rrna ◽  
Phylogenetic Tree ◽  
Cytochrome B ◽  
Maximum Likelihood Method ◽  
Nucleotide Sequences ◽  
Likelihood Method ◽  
Rrna Gene ◽  
B Genome ◽  
The One

Abstract This study aimed to identify the phylogenetic similarities among the muntjac (Muntiacus spp.). The phylogenetic similarities among seven major muntjac species were studied by comparing the nucleotide sequence of 16s rRNA and cytochrome b genome. Nucleotide sequences, retrieved from NCBI databases were aligned by using DNASTAR software. A phylogenetic tree was created for the selected species of muntjac by using the maximum likelihood method on MEGA7 software. The results of nucleotide sequences (16s rRNA) showed phylogenetic similarities between, the M. truongsonensis and M. rooseveltorum had the highest (99.2%) while the lowest similarities (96.8%) found between M. crinifrons and M. putaoensi. While the results of nucleotide sequences (Cty b) showed the highest similarity (100%) between M. muntjak and M. truongsonensis and the lowest s (91.5%) among M. putaoensis and M. crinifrons. The phylogenetic tree of muntjac species (16s rRNA gene) shows the main two clusters, the one including M. putaoensis, M. truongsonensis, M. rooseveltorum, and M. muntjak, and the second one including M. crinifrons and M. vuquangensis. The M. reevesi exists separately in the phylogenetic tree. The phylogenetic tree of muntjac species using cytochrome b genes shows that the M. muntjak and M. truongsonensis are clustered in the same group.

scholarly journals Determination of the Nucleotide Sequences of Heat Shock Operon groESL and the Citrate Synthase Gene (gltA) of Anaplasma (Ehrlichia) platys for Phylogenetic and Diagnostic Studies

2002 ◽  
Vol 9 (5) ◽  
pp. 1132-1136 ◽  
Author(s):  
Hisashi Inokuma ◽  
Kaori Fujii ◽  
Masaru Okuda ◽  
Takafumi Onishi ◽  
Jean-Pierre Beaufils ◽  
...  
Keyword(s):  
Heat Shock ◽  
Nucleotide Sequence ◽  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Tree ◽  
Citrate Synthase ◽  
Nucleotide Sequences ◽  
Rrna Gene ◽  
Diagnostic Studies

ABSTRACT The 1,670-bp nucleotide sequence of the heat shock operon groESL and the 1,236-bp sequence of the citrate synthase gene (gltA) of Anaplasma (Ehrlichia) platys were determined. The topology of the groEL- and gltA-based phylogenetic tree was similar to that derived from 16S rRNA gene analyses with distances. Both groESL- and gltA-based PCRs specific to A. platys were also developed based upon the alignment data.

scholarly journals Detection of a putative novel genotype of Ehrlichia sp. from opossums (Didelphis aurita) from Brazil

2019 ◽  
Vol 28 (1) ◽  
pp. 140-144
Author(s):  
Andresa Guimarães ◽  
Juliana Macedo Raimundo ◽  
Aline Tonussi da Silva ◽  
Fernanda Modesto Carpintero ◽  
Jeferson Rocha Pires ◽  
...  
Keyword(s):  
16S Rrna ◽  
Maximum Likelihood Method ◽  
Evolutionary Model ◽  
Geographic Area ◽  
Likelihood Method ◽  
Rrna Gene ◽  
Tick Vectors ◽  
Didelphis Aurita ◽  
Southeastern Region ◽  
The 16S Rrna Gene

Abstract Erlichiosis affects humans and animals worldwide. Its distribution and prevalence depends on the presence of tick vectors and hosts in one geographic area. The aim of the present study was to investigate the occurrence of Ehrlichia spp. and Anaplasma spp. in opossums (Didelphis sp.) from the State of Rio de Janeiro, southeast Brazil. Blood samples from 37 animals were tested for these two pathogens using molecular methods. One animal (2.7%) was positive for Ehrlichia sp. by 16S rRNA-based nested PCR. In a phylogenetic analysis based on the 16S rRNA gene using the maximum likelihood method and the GTRGAMMA+I evolutionary model, we detected a novel Ehrlichia sp. genotype closely related to genotypes of E. canis previously reported in dogs from Brazil. To the authors’ knowledge, this is the first molecular detection of Ehrlichia sp. in opossums from this State in the southeastern region of the country.

scholarly journals ANALISIS FILOGENETIK GARCINIA SPP. BERDASARKAN SEKUENS GEN rRNA

2021 ◽  
Vol 46 (2) ◽  
pp. 259
Author(s):  
Rara Erlina Oktafia ◽  
Badruzsaufari Badruzsaufari
Keyword(s):  
Phylogenetic Analysis ◽  
Maximum Likelihood ◽  
Phylogenetic Tree ◽  
Gene Sequence ◽  
Maximum Likelihood Method ◽  
Evolutionary Relationship ◽  
Morphological Characters ◽  
Likelihood Method ◽  
Rrna Gene ◽  
Rrna Gene Sequence

Garcinia genus has a complicated taxonomy due to the high similarities in morphological characters of its members. The phylogenetic analysis on Garcinia species based on rRNA gene sequence intended to find out the evolutionary relationship amongst the species. This research employed 20 sequences of the rRNA gene of Garcinia species selected from the GenBank of the National Center for Biology Information (NCBI).  The sequences were aligned using ClustalW with the MEGA X application. A phylogenetic tree was constructed Maximum Likelihood method approximation and Kimura 2-parameter model. The results of the analysis showed that the cladogram had monophyletic parameter properties and classified into 3 clades. Clade I consisted of G. celebica, G. hombroniana, G. opaca, G. mangostana, G. malaccensis, G. penangiana, G. scortechinii, G. hanburyi, and G. urophylla. Clade II included G. atroviridis, G. bancana, G. forbesii, G. griffithii, G. cowa, G. nigrolineata, G. globulosa, and G. parvifolia. Clade III composed of G. rostrata, G. nervosa, and G. praininiana.  The species of Garcinia considered the most primitive and the closet to their ancestor is G. nervosa. 

A new species of salamander (Caudata: Plethodontidae, Bolitoglossa) from Sierra Nevada de Mérida, Venezuela

Zootaxa ◽  
2013 ◽  
Vol 3620 (1) ◽  
pp. 179-191 ◽  
Author(s):  
JAVIER GARCÍA-GUTIÉRREZ ◽  
MOISÉS ESCALONA ◽  
ANDRÉS MORA ◽  
AMELIA DÍAZ DE PASCUAL ◽  
GUSTAVO FERMIN
Keyword(s):  
New Species ◽  
Nucleotide Sequence ◽  
16S Rrna ◽  
Sierra Nevada ◽  
Cloud Forest ◽  
Rrna Gene ◽  
Cytb Gene ◽  
Hind Limbs ◽  
A New Species ◽  
The 16S Rrna Gene

In this article, a new species of salamander of the genus Bolitoglossa (Eladinea) from the cloud forest near La Mucuy in Sierra Nevada de Mérida, Venezuelan Andes, is described. Bolitoglossa mucuyensis sp. nov. differs from all Venezuelan salamanders, except B. orestes, by a larger SVL/TL ratio, and from La Culata salamander B. orestes by a reduced webbing extension of the front and hind limbs. Additionally, B. mucuyensis sp. nov. and B. orestes diverge 3.12% in terms of the nucleotide sequence of the 16S rRNA gene, as previously reported, and in 8.1% for the cytb gene as shown in this study.

scholarly journals Molecular identification and genotyping of Atopobium vaginae, 16s rRNA gene from Bacterial Vaginosis miscarriage women in AL-Hillah city

2013 ◽  
Vol 11 (01) ◽  
pp. 74-82
Author(s):  
Ilham A. Bunyan ◽  
Asmaa K. Gatea ◽  
Alaa K. Hameed
Keyword(s):  
16S Rrna ◽  
16S Rrna Gene ◽  
Phylogenetic Tree ◽  
Rrna Gene ◽  
City Hospital ◽  
Phylogenetic Tree Analysis ◽  
Tree Analysis ◽  
Columbia Blood Agar ◽  
The 16S Rrna Gene ◽  
Atopobium Vaginae

This study was aimed to determine the Atopobium vaginae associated BV in vaginosis women and women with miscarriage. Also other aim, the DNA sequencing was performed for phylogenetic tree analysis of 16SrRNA gene in local Atopobium vaginae isolates in comparison with NCBI-Genbank global Atopobium vaginae isolates and finally submission of the present isolates in NCBI-Genbank database. One hundred fifty (150) high vaginal swabs were collected from women with vaginosis(Seventy five samples were taken from married vaginosis women without miscarriage and Seventy five samples from vaginosis women with miscarriage) from Babylon city hospital and private clinics. The age of patient (15– 45) years. The sample was collected by disposable swabs, genomic DNA was extracted from these swabs. 16s rRNA gene detection by polymerase chain reaction technique . Atopobium vaginae was isolated on Columbia blood agar supplemented with antibiotic for the first time in Iraq, the study confirmed that 9 (12.00%) and 5(6.66%) of Atopobium vaginae out of 150 swabs isolated from miscarriage and non-miscarriage vaginosis women respectively. According to the detection of the 16S rRNA gene, the study revealed that 69(92.00%)and 47(62.66%)of Atopobium vaginae out of 150 swabs obtained from miscarriage and non-miscarriage vaginosis women respectively. BLAST analysis showed that the 16S rRNA gene shared more than 98- 99% sequence compatibility with the sequences of Atopobium vaginae. Furthermore, the phylogenetic tree analysis of the 16S rRNA gene indicated that local Atopobium vaginae (NO.1 and NO. 2 ) isolates shared higher homology with other Atopobium vaginae isolates available in the GenBank. The homology of the nucleotides was between (99.17% and 98.75%) respectively.

Sign in / Sign up

Export Citation Format

Share Document