Phylogenetic Analysis of Mos1-Like Transposable Elements in the Drosophilidae

1999 ◽  
Vol 49 (6) ◽  
pp. 760-768 ◽  
Author(s):  
Frédéric Brunet ◽  
Fabienne Godin ◽  
Claude Bazin ◽  
Pierre Capy
Keyword(s):  
Phylogenetic Analysis ◽  
Transposable Elements

scholarly journals In silico Phylogenetic Analysis of hAT Transposable Elements in Plants

Genes ◽  
2018 ◽  
Vol 9 (6) ◽  
pp. 284 ◽  
Author(s):  
Gökhan Karakülah ◽  
Athanasia Pavlopoulou
Keyword(s):  
Phylogenetic Analysis ◽  
Transposable Elements ◽  
In Silico

scholarly journals Molecular characterization of mariner-like elements in Bruchus pisorum and Bruchus rufimanus (Coleoptera: Bruchidae)

2017 ◽  
Vol 69 (2) ◽  
pp. 353-360 ◽  
Author(s):  
Salma Djebbi ◽  
Amara Ben ◽  
Hanem Makni ◽  
Mohamed Makni ◽  
Maha Mezghani-Khemakhem
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Transposable Elements ◽  
Inverted Repeats ◽  
Terminal Inverted Repeats ◽  
Transfer Genes ◽  
Recent Origin ◽  
Bruchus Pisorum ◽  
Respective Host

Mariner-like elements (MLEs) are Class-II transposons that are widely present in diverse organisms and encode a D,D34D transposase motif. MLE sequences from two coleopteran species, Bruchuspisorum and B. rufimanus were obtained using the terminal-inverted repeats (TIRs) of mariner elements belonging to the mauritiana subfamily as primer. The characterized elements were between 1073 and 1302 bp in length and are likely to be inactive, based on the presence of multiple stop codons and/or frameshifts. A single consensus of MLE was detected in B. pisorum and was named Bpmar1. This element exhibited several conserved amino acid blocks as well as the specific D,D(34)D signature. As for B. rufimanus, two MLE consensuses, designated Brmar1 and Brmar2, were isolated, both containing deletions overlapping the internal region of the transposase. Structural and phylogenetic analysis of these sequences suggested a relatively recent origin of Bpmar1 versus a more ancient invasion of Brmar1 and Brmar2 in their respective host genomes. Given that MLEs are potential mediators of insect resistance and have been used as vectors to transfer genes into host genomes, the MLEs characterized in this study will have valuable implications for selecting appropriate transposable elements in transgenesis.

scholarly journals Comparative Genomics of Copia and Gypsy Retroelements in Three Banana Genomes: A, B, and S Genomes

2021 ◽  
Vol 44 (4) ◽  
Author(s):  
Sigit Nur Pratama ◽  
Fenny Martha Dwivany ◽  
Husna Nugrahapraja
Keyword(s):  
Phylogenetic Analysis ◽  
Transposable Elements ◽  
Evolutionary Relationship ◽  
Repetitive Elements ◽  
B Genome ◽  
Copy Numbers ◽  
Multiple Alignments ◽  
A Genome ◽  
Genome Assemblies ◽  
Relationship Of

In plants, the proportion of transposable elements (TEs) is generally dominated by long terminal repeat (LTR) retroelements. Therefore, it significantly impacts on genome expansion and genetic and phenotypic variation, namely Copia and Gypsy. Despite such contribution, TEs characterisation in an important crop such as banana [Musa balbisiana (B genome), Musa acuminata (A genome), and Musa schizocarpa (S genome)] remains poorly understood. This study aimed to compare B, A, and S genomes based on repetitive element proportions and copy numbers and determine the evolutionary relationship of LTR using phylogenetic analysis of the reverse transcriptase (RT) domain. Genome assemblies were acquired from the Banana Genome Hub (banana-genome-hub.southgreen.fr). Repetitive elements were masked by RepeatMasker 4.0.9 before Perl parsing. Phylograms were constructed according to domain analysis using DANTE (Domain-based ANnotation of Transposable Elements), alignments were made using MAFFT 7 (multiple alignments using fast Fourier transform), and trees were inferred using FastTree 2. The trees were inspected using SeaView 4 and visualised with FigTree 1.4.4. We reported that B, A, and S genomes are composed of repetitive elements with 19.38%, 20.78%, and 25.96%, respectively. The elements were identified with dominant proportions in the genome are LTR, in which Copia is more abundant than Gypsy. Based on RT phylogenetic analysis, LTR elements are clustered into 13 ancient lineages in which Sire (Copia) and Reina (Gypsy) are shown to be the most abundant LTR lineages in bananas.

Survey of transposable elements from rice genomic sequences

2001 ◽  
Vol 25 (2) ◽  
pp. 169-179 ◽  
Author(s):  
Kime Turcotte ◽  
Sujatha Srinivasan ◽  
Thomas Bureau
Keyword(s):  
Transposable Elements ◽  
Genomic Sequences

Morphological, histological and molecular characterization of Myxidium cf. rhodei infecting the kidney of Rutilus rutilus

2020 ◽  
Vol 141 ◽  
pp. 39-46
Author(s):  
MD Dorjievna Batueva ◽  
X Pan ◽  
J Zhang ◽  
X Liu ◽  
W Wei ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Molecular Characterization ◽  
Rutilus Rutilus ◽  
Longitudinal Axis ◽  
Suture Line ◽  
Present Species ◽  
Supplementary Data

In the present study, we provide supplementary data for Myxidium cf. rhodei Léger, 1905 based on morphological, histological and molecular characterization. M. cf. rhodei was observed in the kidneys of 918 out of 942 (97%) roach Rutilus rutilus (Linnaeus, 1758). Myxospores of M. cf. rhodei were fusiform with pointed ends, measuring 12.7 ± 0.1 SD (11.8-13.4) µm in length and 4.6 ± 0.1 (3.8-5.4) µm in width. Two similar pear-shaped polar capsules were positioned at either ends of the longitudinal axis of the myxospore: each of these capsules measured 4.0 ± 0.1 (3.1-4.7) µm in length and 2.8 ± 0.1 (2.0-4.0) µm in width. Polar filaments were coiled into 4 to 5 turns. Approximately 18-20 longitudinal straight ridges were observed on the myxospore surface. The suture line was straight and distinctive, running near the middle of the valves. Histologically, the plasmodia of the present species were found in the Bowman’s capsules, and rarely in the interstitium of the host. Phylogenetic analysis revealed that M. cf. rhodei was sister to M. anatidum in the Myxidium clade including most Myxidium species from freshwater hosts.

Sign in / Sign up

Export Citation Format

Share Document