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Merchant A, Ramirez BI, Reyes MN, Van D, Martinez-Colin M, Ojo DO, Mazuca EL, De La O HJ, Glenn AM, Lira CG, Ehsan H, Yu E, Kaneko G. Genomic loss of the HSP70cA gene in the vertebrate lineage. Cell Stress Chaperones 2023; 28:1053-1067. [PMID: 37587350 PMCID: PMC10746604 DOI: 10.1007/s12192-023-01370-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/12/2022] [Revised: 08/07/2023] [Accepted: 08/08/2023] [Indexed: 08/18/2023] Open
Abstract
Metazoan 70 kDa heat shock protein (HSP70) genes have been classified into four lineages: cytosolic A (HSP70cA), cytosolic B (HSP70cB), endoplasmic reticulum (HSP70er), and mitochondria (HSP70m). Because previous studies have identified no HSP70cA genes in vertebrates, we hypothesized that this gene was lost on the evolutionary path to vertebrates. To test this hypothesis, the present study conducted a comprehensive database search followed by phylogenetic and synteny analyses. HSP70cA genes were found in invertebrates and in two of the three subphyla of Chordata, Cephalochordata (lancelets) and Tunicata (tunicates). However, no HSP70cA gene was found in the genomes of Craniata (another subphylum of Chordata; lamprey, hagfish, elephant shark, and coelacanth), suggesting the loss of the HSP70cA gene in the early period of vertebrate evolution. Synteny analysis using available genomic resources indicated that the synteny around the HSP70 genes was generally conserved between tunicates but was largely different between tunicates and lamprey. These results suggest the presence of dynamic chromosomal rearrangement in early vertebrates that possibly caused the loss of the HSP70cA gene in the vertebrate lineage.
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Affiliation(s)
- Alisha Merchant
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Bradly I Ramirez
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Melinda N Reyes
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Dysocheata Van
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Marilin Martinez-Colin
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Damilola O Ojo
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Esmeralda L Mazuca
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Heidi J De La O
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Abigayle M Glenn
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Claudia G Lira
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Hashimul Ehsan
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA
| | - Ermeng Yu
- Key Laboratory of Tropical & Subtropical Fishery Resource Application & Cultivation, Pearl River Fisheries Research Institute of CAFS, Guangzhou, 510380, China.
| | - Gen Kaneko
- College of Natural and Applied Science, University of Houston-Victoria, Victoria, TX, 77901, USA.
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Clark MS, Shabtay A, Waters ER, Truebano M. Organisms in a changing world. Cell Stress Chaperones 2023; 28:441-443. [PMID: 37464104 PMCID: PMC10469140 DOI: 10.1007/s12192-023-01365-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/27/2023] [Indexed: 07/20/2023] Open
Affiliation(s)
- Melody S Clark
- British Antarctic Survey, Natural Environment Research Council, High Cross, Madingley Road, Cambridge, CB3 OET, UK.
| | | | - Elizabeth R Waters
- Department of Biology, San Diego State University, 5500 Campanile Drive, San Diego, CA, 92182, USA
| | - Manuela Truebano
- Marine Biology and Ecology Research Centre, School of Biological and Marine Sciences, University of Plymouth, Drake Circus, Plymouth, PL4 8AA, UK
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3
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Hasnain P, Kaneko G. Phylogenetic annotation of Caenorhabditis elegans heat shock protein 70 genes. MICROPUBLICATION BIOLOGY 2022; 2022:10.17912/micropub.biology.000633. [PMID: 36120474 PMCID: PMC9478747 DOI: 10.17912/micropub.biology.000633] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/08/2022] [Revised: 08/18/2022] [Accepted: 08/31/2022] [Indexed: 12/13/2022]
Abstract
Annotation of the 70 kDa heat shock proteins (Hsp70s) has been chaotic especially in invertebrates. In this study, we validated an emerging nomenclature of Hsp70s, which can be potentially applied to all metazoan Hsp70s, by conducting a genome-wide annotation of Caenorhabditis elegans Hsp70s. Using the phylogenetic annotation, the seven canonical C. elegans Hsp70s were successfully classified into four known lineages, cytosolic A, cytosolic B, endoplasmic reticulum, and mitochondria. Motifs specific to each lineage were all conserved in the C. elegans Hsp70s. From these results, we propose new aliases of C. elegans Hsp70s that should help future annotation of this important molecular chaperone.
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Affiliation(s)
| | - Gen Kaneko
- University of Houston-Victoria, Victoria, TX, United States.
,
Correspondence to: Gen Kaneko (
)
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Kaneko G. Phylogenetic annotation of Drosophila melanogaster heat shock protein 70 genes. MICROPUBLICATION BIOLOGY 2022; 2022:10.17912/micropub.biology.000558. [PMID: 35622499 PMCID: PMC9019595 DOI: 10.17912/micropub.biology.000558] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Revised: 04/16/2022] [Accepted: 04/18/2022] [Indexed: 11/24/2022]
Abstract
The traditional classification of stress-inducible 70 kDa heat shock protein (Hsp70) and heat shock cognate (Hsc70) requires a revision because of a recent finding that neither of them constitutes a monophyletic gene family. Here we inferred a phylogenetic relationship among
Drosophila melanogaster
Hsp70 family members.
D. melanogaster
Hsp70 family members were separated into four known metazoan Hsp70 lineages: cytosolic A, cytosolic B, endoplasmic reticulum, and mitochondria. Hsc70s sporadically distributed in the phylogenetic tree, indicating their paraphyletic origin. Detailed sequence inspection found several motifs that support the phylogenetic analysis. Taken together, we propose new aliases of
D. melanogaster
Hsp70 family members based on their evolutionary history.
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Affiliation(s)
- Gen Kaneko
- University of Houston-Victoria
,
Correspondence to: Gen Kaneko (
)
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