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Shan H, Ren K, Liu J, Rehman SU, Yan X, Ma X, Zheng Y, Feng T, Wang X, Li Z, Zhou W, Chuang C, Liang M, Zheng J, Liu Q. Comprehensive Transcriptome Sequencing Analysis of Hirudinaria manillensis in Different Growth Periods. Front Physiol 2022; 13:897458. [PMID: 35694407 PMCID: PMC9174698 DOI: 10.3389/fphys.2022.897458] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/16/2022] [Accepted: 04/22/2022] [Indexed: 02/04/2023] Open
Abstract
Medical leeches are widely been used in biochemical and clinical medical studies, helping to restore blood circulation to grafted or severely injured tissue. Mostly, adult leeches are being used in the traditional pharmacopeia, but the gene expression profiling of leeches in different growth periods is not well-reported. So, in this study, we used transcriptome analysis to analyze the comparative gene expression patterns of Hirudinaria manillensis (H. manillensis) in different growth periods, including larval, young, and adult stages. We constructed 24 cDNA libraries from H. manillensis larval, young, and adult stages, and about 54,639,118 sequences were generated, 18,106 mRNA transcripts of which 958 novel mRNAs and 491 lncRNAs were also assembled as well. Furthermore, the results of Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment analyses revealed that the differentially upregulated genes from the larval to adult stages were enriched in pathways such as cilium, myofibril, contractile fiber, cytoskeleton proteins, dilated cardiomyopathy, adrenergic signaling in cardiomyocytes, etc. Moreover, in the adult stages, a significant increase in the expression of the Hirudin-HM (HIRM2) genes was detected. In addition, our comparative transcriptome profiling data from different growth stages of H. manillensis also identified a large number of DEGs and DElncRNAs which were tentatively found to be associated with the growth of H. manillensis; as it grew, the muscle-related gene expression increased, while the lipid metabolism and need for stimulation and nutrition-related genes decreased. Similarly, the higher expression of HIRM2 might attribute to the high expression of protein disulfide isomerase gene family (PDI) family genes in adulthood, which provides an important clue that why adult leeches rather than young leeches are widely used in clinical therapeutics and traditional Chinese medicine.
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Affiliation(s)
- Huiquan Shan
- Guangdong Provincial Key Laboratory of Animal Molecular Design and Precise Breeding, School of Life Science and Engineering, Foshan University, Foshan, China
- State Key Laboratory for Conservation and Utilization of Subtropical Agro- Bioresources, Guangxi University, Nanning, China
| | - Ke Ren
- Department of Cardiology, Ruikang Hospital Affiliated to Guangxi University of Chinese Medicine, Nanning, China
| | - Jiasheng Liu
- Department of Cardiology, Ruikang Hospital Affiliated to Guangxi University of Chinese Medicine, Nanning, China
| | - Saif ur Rehman
- State Key Laboratory for Conservation and Utilization of Subtropical Agro- Bioresources, Guangxi University, Nanning, China
| | - Xiuying Yan
- State Key Laboratory for Conservation and Utilization of Subtropical Agro- Bioresources, Guangxi University, Nanning, China
| | - Xiaocong Ma
- Department of Cardiology, Ruikang Hospital Affiliated to Guangxi University of Chinese Medicine, Nanning, China
| | - Yalin Zheng
- State Key Laboratory for Conservation and Utilization of Subtropical Agro- Bioresources, Guangxi University, Nanning, China
| | - Tong Feng
- State Key Laboratory for Conservation and Utilization of Subtropical Agro- Bioresources, Guangxi University, Nanning, China
| | - Xiaobo Wang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro- Bioresources, Guangxi University, Nanning, China
| | - Zhipeng Li
- State Key Laboratory for Conservation and Utilization of Subtropical Agro- Bioresources, Guangxi University, Nanning, China
| | - Weiguan Zhou
- THAI Natural Hirudin Co., Ltd., Bangkok, Thailand
| | - Chen Chuang
- Guangxi Medical University Cancer Hospital, Nanning, China
| | - Mingkun Liang
- Department of Cardiology, Ruikang Hospital Affiliated to Guangxi University of Chinese Medicine, Nanning, China
| | - Jinghui Zheng
- Department of Cardiology, Ruikang Hospital Affiliated to Guangxi University of Chinese Medicine, Nanning, China
- *Correspondence: Jinghui Zheng, ; Qingyou Liu,
| | - Qingyou Liu
- Guangdong Provincial Key Laboratory of Animal Molecular Design and Precise Breeding, School of Life Science and Engineering, Foshan University, Foshan, China
- *Correspondence: Jinghui Zheng, ; Qingyou Liu,
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Turczyńska KM, Swärd K, Hien TT, Wohlfahrt J, Mattisson IY, Ekman M, Nilsson J, Sjögren J, Murugesan V, Hultgårdh-Nilsson A, Cidad P, Hellstrand P, Pérez-García MT, Albinsson S. Regulation of Smooth Muscle Dystrophin and Synaptopodin 2 Expression by Actin Polymerization and Vascular Injury. Arterioscler Thromb Vasc Biol 2015; 35:1489-97. [DOI: 10.1161/atvbaha.114.305065] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2014] [Accepted: 03/27/2015] [Indexed: 01/25/2023]
Abstract
Objective—
Actin dynamics in vascular smooth muscle is known to regulate contractile differentiation and may play a role in the pathogenesis of vascular disease. However, the list of genes regulated by actin polymerization in smooth muscle remains incomprehensive. Thus, the objective of this study was to identify actin-regulated genes in smooth muscle and to demonstrate the role of these genes in the regulation of vascular smooth muscle phenotype.
Approach and Results—
Mouse aortic smooth muscle cells were treated with an actin-stabilizing agent, jasplakinolide, and analyzed by microarrays. Several transcripts were upregulated including both known and previously unknown actin-regulated genes. Dystrophin and synaptopodin 2 were selected for further analysis in models of phenotypic modulation and vascular disease. These genes were highly expressed in differentiated versus synthetic smooth muscle and their expression was promoted by the transcription factors myocardin and myocardin-related transcription factor A. Furthermore, the expression of both synaptopodin 2 and dystrophin was significantly reduced in balloon-injured human arteries. Finally, using a dystrophin mutant
mdx
mouse and synaptopodin 2 knockdown, we demonstrate that these genes are involved in the regulation of smooth muscle differentiation and function.
Conclusions—
This study demonstrates novel genes that are promoted by actin polymerization, that regulate smooth muscle function, and that are deregulated in models of vascular disease. Thus, targeting actin polymerization or the genes controlled in this manner can lead to novel therapeutic options against vascular pathologies that involve phenotypic modulation of smooth muscle cells.
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Affiliation(s)
- Karolina M. Turczyńska
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Karl Swärd
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Tran Thi Hien
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Johan Wohlfahrt
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Ingrid Yao Mattisson
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Mari Ekman
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Johan Nilsson
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Johan Sjögren
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Vignesh Murugesan
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Anna Hultgårdh-Nilsson
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Pilar Cidad
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Per Hellstrand
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - M. Teresa Pérez-García
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
| | - Sebastian Albinsson
- From the Department of Experimental Medical Science (K.M.T., K.S., T.T.H., J.W., I.Y.M., M.E., V.M., A.H.-N., P.H., S.A.) and Department of Clinical Science (J.N., J.S.), Lund University, Lund, Sweden; and Departamento de Bioquímica y Biología Molecular y Fisiología and Instituto de Biología y Genética Molecular (IBGM), Universidad de Valladolid and Consejo Superior de Investigaciones Científicas (CSIC), Valladolid, Spain (P.C., M.T.P.-G.)
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Kooij V, Venkatraman V, Kirk JA, Ubaida-Mohien C, Graham DR, Faber MJ, Van Eyk JE. Identification of cardiac myofilament protein isoforms using multiple mass spectrometry based approaches. Proteomics Clin Appl 2015; 8:578-589. [PMID: 24974818 DOI: 10.1002/prca.201400039] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2014] [Revised: 05/30/2014] [Accepted: 06/24/2014] [Indexed: 02/01/2023]
Abstract
PURPOSE The identification of protein isoforms in complex biological samples is challenging. We, therefore, used an MS approach to unambiguously identify cardiac myofilament protein isoforms based on the observation of a tryptic peptide consisting of a sequence unique to a particular isoform. EXPERIMENTAL DESIGN Three different workflows were used to isolate and fractionate rat cardiac myofilament subproteomes. All fractions were analyzed on an LTQ-Orbitrap MS, proteins were identified using various search engines (MASCOT, X!Tandem, X!Tandem Kscore, and OMSSA) with results combined via PepArML Meta-Search engine, and a postsearch analysis was performed by MASPECTRAS. All MS data have been deposited in the ProteomeXchange with identifier PXD000874 (http://proteomecentral.proteomexchange.org/dataset/PXD000874). RESULTS The combination of multiple workflows and search engines resulted in a larger number of nonredundant proteins identified than with individual methods. A total of 102 myofilament annotated proteins were observed overlapping in two or three of the workflows. Literature search for myofilament presence with manual validation of the MS spectra was carried out for unambiguous identification: ten cardiac myofilament and 17 cardiac myofilament-associated proteins were identified with 39 isoforms and subisoforms. CONCLUSION AND CLINICAL RELEVANCE We have identified multiple isoforms of myofilament proteins that are present in cardiac tissue using unique tryptic peptides. Changes in distribution of these protein isoforms under pathological conditions could ultimately allow for clinical diagnostics or as therapeutic targets.
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Affiliation(s)
- Viola Kooij
- Department of medicine, Division of Cardiology, The Johns Hopkins University, Baltimore, USA
| | - Vidya Venkatraman
- Department of medicine, Division of Cardiology, The Johns Hopkins University, Baltimore, USA.,Advanced Clinical Biosystems Research Institute, Heart Institute and Department of Medicine, Cedars-Sinai Medical Center, Los Angeles, USA
| | - Jonathan A Kirk
- Department of medicine, Division of Cardiology, The Johns Hopkins University, Baltimore, USA
| | - Ceereena Ubaida-Mohien
- Department of Molecular and Comparative Pathobiology, The Johns Hopkins University, Baltimore, MD, USA
| | - David R Graham
- Department of medicine, Division of Cardiology, The Johns Hopkins University, Baltimore, USA.,Department of Molecular and Comparative Pathobiology, The Johns Hopkins University, Baltimore, MD, USA
| | - Matthijs J Faber
- Erasmus MC-Sophia, Department of Pediatrics, Division of Pediatric Cardiology, Rotterdam, The Netherlands
| | - Jennifer E Van Eyk
- Department of medicine, Division of Cardiology, The Johns Hopkins University, Baltimore, USA.,Advanced Clinical Biosystems Research Institute, Heart Institute and Department of Medicine, Cedars-Sinai Medical Center, Los Angeles, USA
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