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Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes
The biological function of the novel zinc-finger SWIM domain-containing protein family (ZSWIM) during embryonic development remains elusive. Here, we conducted a genome-wide analysis to explore the evolutionary processes of the ZSWIM gene family members in mice, Xenopus tropicalis, zebrafish, and hu...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Science Press
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10236294/ https://www.ncbi.nlm.nih.gov/pubmed/37161653 http://dx.doi.org/10.24272/j.issn.2095-8137.2022.418 |
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author | Hassan, Imtiaz Ul Rehman, Hafiz Mamoon Liu, Ziran Zhou, Liangji Samma, Muhammad Kaleem Wang, Chengdong Rong, Zixin Qi, Xufeng Cai, Dongqing Zhao, Hui |
author_facet | Hassan, Imtiaz Ul Rehman, Hafiz Mamoon Liu, Ziran Zhou, Liangji Samma, Muhammad Kaleem Wang, Chengdong Rong, Zixin Qi, Xufeng Cai, Dongqing Zhao, Hui |
author_sort | Hassan, Imtiaz Ul |
collection | PubMed |
description | The biological function of the novel zinc-finger SWIM domain-containing protein family (ZSWIM) during embryonic development remains elusive. Here, we conducted a genome-wide analysis to explore the evolutionary processes of the ZSWIM gene family members in mice, Xenopus tropicalis, zebrafish, and humans. We identified nine putative ZSWIM genes in the human and mouse genome, eight in the Xenopus genome, and five in the zebrafish genome. Based on multiple sequence alignment, three members, ZSWIM5, ZSWIM6, and ZSWIM8, demonstrated the highest homology across all four species. Using available RNA sequencing (RNA-seq) data, ZSWIM genes were found to be widely expressed across different tissues, with distinct tissue-specific properties. To identify the functions of the ZSWIM protein family during embryogenesis, we examined temporal and spatial expression patterns of zswim family genes in Xenopus embryos. Quantitative real-time polymerase chain reaction (qRT-PCR) revealed that each member had a distinct expression profile. Whole-mount in situ hybridization showed that both zswim1 and zswim3 were maternally expressed genes; zswim5 and zswim6 were expressed throughout embryogenesis and displayed dynamic expression in the brain, eyes, somite, and bronchial arch at the late tailbud stages; zswim7 was detected in the eye area; zswim8 showed a dynamic expression pattern during the tailbud stages, with expression detected in the brain, eyes, and somite; zswim9 was faintly expressed throughout embryonic development. This study provides a foundation for future research to delineate the functions of ZSWIM gene members. |
format | Online Article Text |
id | pubmed-10236294 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Science Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-102362942023-06-03 Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes Hassan, Imtiaz Ul Rehman, Hafiz Mamoon Liu, Ziran Zhou, Liangji Samma, Muhammad Kaleem Wang, Chengdong Rong, Zixin Qi, Xufeng Cai, Dongqing Zhao, Hui Zool Res Article The biological function of the novel zinc-finger SWIM domain-containing protein family (ZSWIM) during embryonic development remains elusive. Here, we conducted a genome-wide analysis to explore the evolutionary processes of the ZSWIM gene family members in mice, Xenopus tropicalis, zebrafish, and humans. We identified nine putative ZSWIM genes in the human and mouse genome, eight in the Xenopus genome, and five in the zebrafish genome. Based on multiple sequence alignment, three members, ZSWIM5, ZSWIM6, and ZSWIM8, demonstrated the highest homology across all four species. Using available RNA sequencing (RNA-seq) data, ZSWIM genes were found to be widely expressed across different tissues, with distinct tissue-specific properties. To identify the functions of the ZSWIM protein family during embryogenesis, we examined temporal and spatial expression patterns of zswim family genes in Xenopus embryos. Quantitative real-time polymerase chain reaction (qRT-PCR) revealed that each member had a distinct expression profile. Whole-mount in situ hybridization showed that both zswim1 and zswim3 were maternally expressed genes; zswim5 and zswim6 were expressed throughout embryogenesis and displayed dynamic expression in the brain, eyes, somite, and bronchial arch at the late tailbud stages; zswim7 was detected in the eye area; zswim8 showed a dynamic expression pattern during the tailbud stages, with expression detected in the brain, eyes, and somite; zswim9 was faintly expressed throughout embryonic development. This study provides a foundation for future research to delineate the functions of ZSWIM gene members. Science Press 2023-05-18 /pmc/articles/PMC10236294/ /pubmed/37161653 http://dx.doi.org/10.24272/j.issn.2095-8137.2022.418 Text en https://creativecommons.org/licenses/by-nc/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/ (https://creativecommons.org/licenses/by-nc/4.0/) ), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Article Hassan, Imtiaz Ul Rehman, Hafiz Mamoon Liu, Ziran Zhou, Liangji Samma, Muhammad Kaleem Wang, Chengdong Rong, Zixin Qi, Xufeng Cai, Dongqing Zhao, Hui Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes |
title | Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes |
title_full | Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes |
title_fullStr | Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes |
title_full_unstemmed | Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes |
title_short | Genome-wide identification and spatiotemporal expression profiling of zinc finger SWIM domain-containing protein family genes |
title_sort | genome-wide identification and spatiotemporal expression profiling of zinc finger swim domain-containing protein family genes |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10236294/ https://www.ncbi.nlm.nih.gov/pubmed/37161653 http://dx.doi.org/10.24272/j.issn.2095-8137.2022.418 |
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