An ancient and still ongoing genetic conflict between transposable elements and their repressors DOI Creative Commons
Rachele Cagliani, Diego Forni, Alessandra Mozzi

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 23, 2024

Abstract Background. Transposable element (TE) mobilization poses a significant fitness challenge to host genomes. Consequently, variety of systems have emerged silence TE activity. Just like TEs, such are widespread across the tree life and their evolution is expected be shaped by intra-genomic conflicts. To test this hypothesis, we performed an evolutionary analysis control different timescales. Results. We show that substantial fraction genes were targets positive selection during primate evolution, as well more recent history human populations, with abundant signatures in proteins piRNA pathway. In these proteins, was strongest intrinsically disordered regions (IDRs), particularly those low conformational entropy, contributed modulate ensemble features sequence patterning. primates, larger number TEs also resulted reduced accumulation new mobile elements, assessed genomic or occurrences. Across longer time frames, uncover wide variability content PIWI-containing unprecedented diversity domain architectures for eukaryotes. Finally, identify bacterial Argonaute closest prokaryotic relative unusual conservation IDR huge distances. Conclusions. Our data provide insight into eukaryotes and, through analyses over deep distances, contribute information rapidly growing evo-immuno discipline.

Language: Английский

Differential LTR-retrotransposon dynamics across polyploidization, speciation, domestication and improvement of cotton (Gossypium) DOI Creative Commons
Lucía Campos, Raúl Castanera, Corrinne E. Grover

et al.

Research Square (Research Square), Journal Year: 2025, Volume and Issue: unknown

Published: March 21, 2025

Abstract Background Transposable elements (TEs) are major components of plant genomes and drivers genome evolution. The cotton genus (Gossypium) is an excellent evolutionary model for polyploidization, speciation, domestication crop improvement. Here, we implement pangenome analyses to study in detail the dynamics LTR-retrotransposons (LTR-RT) during Results We show that some LTR-RT lineages amplified tetraploid compared their diploid progenitors, whereas others stayed stable or but were removed through solo-LTR formation. Using species-level pangenomes only a few (CRM, Tekay, Ivana Tork) remained active after polyploidization still transposing. Tekay CRM have re-shaped centromeric pericentromeric regions cottons subgenome specific manner, new insertions also selective eliminations On other hand, Tork actively inserted within close genes. Finally, population-level using two data from 283 223 varieties G. hirsutum barbandense reveal changes Transposon Insertion Polymorphism (TIP) frequencies accompanying improvement both species, suggesting possibility selection on linked regions. Conclusions Our findings followed differential evolution, displaying differences among species coresident allopolyploid cotton. A handful expanded polyploidisation helped shape hirstutum barbadense, impacting centromere as well protein- coding

Language: Английский

Citations

0
The Function and Mechanism of ZNF433 in Cancer: From Transcriptional Regulation to Clinical Applications DOI Open Access

灵宇 谢

Journal of Clinical Personalized Medicine, Journal Year: 2025, Volume and Issue: 04(02), P. 1303 - 1312

Published: Jan. 1, 2025

Language: Английский

Citations

0
Identification and validation of CCN family genes to predict the prognosis in gastric cancer DOI Creative Commons

Huanting Chen,

Xiaomin Zhang, Zhe Zhang

et al.

Discover Oncology, Journal Year: 2024, Volume and Issue: 15(1)

Published: Nov. 1, 2024

Gastric cancer (GC) is a deadly malignancy with an ever-increasing incidence worldwide. The cellular communication network (CCN) family serves as matricellular proteins and exerts their various functions via regulating cell proliferation differentiation. This study aimed to perform integrated analysis of CCNs predict the prognosis in GC.

Language: Английский

Citations

0
An ancient and still ongoing genetic conflict between transposable elements and their repressors DOI Creative Commons
Rachele Cagliani, Diego Forni, Alessandra Mozzi

et al.

Research Square (Research Square), Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 23, 2024

Abstract Background. Transposable element (TE) mobilization poses a significant fitness challenge to host genomes. Consequently, variety of systems have emerged silence TE activity. Just like TEs, such are widespread across the tree life and their evolution is expected be shaped by intra-genomic conflicts. To test this hypothesis, we performed an evolutionary analysis control different timescales. Results. We show that substantial fraction genes were targets positive selection during primate evolution, as well more recent history human populations, with abundant signatures in proteins piRNA pathway. In these proteins, was strongest intrinsically disordered regions (IDRs), particularly those low conformational entropy, contributed modulate ensemble features sequence patterning. primates, larger number TEs also resulted reduced accumulation new mobile elements, assessed genomic or occurrences. Across longer time frames, uncover wide variability content PIWI-containing unprecedented diversity domain architectures for eukaryotes. Finally, identify bacterial Argonaute closest prokaryotic relative unusual conservation IDR huge distances. Conclusions. Our data provide insight into eukaryotes and, through analyses over deep distances, contribute information rapidly growing evo-immuno discipline.

Language: Английский

Citations

0