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Onsod P, Jaranasaksakul W, Chareonsirisuthigul T, Parinayok R, Rerkamnuaychoke B, Areesirisuk P. Chromosomal abnormalities study for anembryonic pregnancy by BACs-on-Beads technique. Eur J Obstet Gynecol Reprod Biol 2024; 298:31-34. [PMID: 38705011 DOI: 10.1016/j.ejogrb.2024.04.041] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2023] [Revised: 04/20/2024] [Accepted: 04/29/2024] [Indexed: 05/07/2024]
Abstract
OBJECTIVE This study evaluated the BACs-on-Beads™ (BoBs) efficiency assay in detecting chromosomal anomalies in products of conception (POC) specimens associated with anembryonic pregnancy (AP) among Thai pregnant women. METHOD Retrospective analysis applied the BoBs™ assay to examine AP samples from 2010 to 2022. The incidences of AP with chromosomal abnormalities were reported. RESULT Assessment of villi from anembryonic pregnancy samples found normal chromosome complement in 50% of the cases, while the remainder showed chromosomal abnormalities. Trisomy 16 was found in 15% of the cases and trisomies 22, 15, and 19 in 9.6%, 3.8%, and 3.8%, respectively. Advanced maternal age was associated with a higher incidence of aneuploidy. CONCLUSION The BoBs™ assay effectively detected diverse chromosomal abnormalities in villi samples from POC. The diagnostic utility of the BoBs™ assay was highlighted in identifying chromosomal irregularities in AP cases. Trisomy 16 possessed the most chromosomal abnormalities in the AP samples.
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Affiliation(s)
- Preyaporn Onsod
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Ratchatewi, Bangkok, Thailand
| | - Watcharapa Jaranasaksakul
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Ratchatewi, Bangkok, Thailand
| | - Takol Chareonsirisuthigul
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Ratchatewi, Bangkok, Thailand
| | - Rachanee Parinayok
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Ratchatewi, Bangkok, Thailand
| | - Budsaba Rerkamnuaychoke
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Ratchatewi, Bangkok, Thailand
| | - Prapatsorn Areesirisuk
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Ratchatewi, Bangkok, Thailand.
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Kongruang A, Limsuwanachot N, Magmuang S, Areesirisuk P, Niparuck P, Siriboonpiputtana T, Rerkamnuaychoke B. Committed change of real-time quantitative PCR to droplet digital PCR for monitoring BCR:: ABL1 transcripts in tyrosine kinase inhibitor treated CML. Hematology 2023; 28:2256199. [PMID: 37695125 DOI: 10.1080/16078454.2023.2256199] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2022] [Accepted: 09/02/2023] [Indexed: 09/12/2023] Open
Abstract
OBJECTIVES We performed a feasibility study of an FDA-approved commercial ddPCR assay to measure BCR::ABL1 in CML patients treated using TKI therapy. METHODS Assay performance of standard RQ-PCR and commercially available FDA-approved ddPCR were compared to measure BCR::ABL1 p210 transcripts in RNA samples from 100 CML patients who received TKI therapy. RESULTS %BCR::ABL1/ABL1IS levels obtained from both methods were not statistically significant difference after normalization with batch-specific conversion factor (p = 0.0651). The correlation and agreement of %BCR::ABL1/ABL1IS between the two assays were high. Molecular response stratification data showed 56% concordance between RQ-PCR and ddPCR, and 37% higher residual disease detection using ddPCR. Furthermore, 21.21% (7/33) of RQ-PCR undetectable samples were detected by ddPCR, representing high sensitivity to quantify the low abundance of BCR::ABL1 transcripts. CONCLUSION ddPCR was proven to be a highly sensitive method with the potential to overcome some limitations of traditional RQ-PCR, and has the potential of being a valuable tool for monitoring BCR::ABL1 transcripts in CML during TKI therapy. (163 words).
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Affiliation(s)
- Adcharee Kongruang
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Nittaya Limsuwanachot
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Sutada Magmuang
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Prapatsorn Areesirisuk
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Pimjai Niparuck
- Department of Medicine, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Teerapong Siriboonpiputtana
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Budsaba Rerkamnuaychoke
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
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Parinayok R, Areesirisuk P, Chareonsirisuthigul T, Buchachat W, Rerkamnuaychoke B. Incidence and Types of Fetal Chromosomal Abnormalities in First Trimester of Thai Pregnant Women between Miscarriages and Intrauterine Survivals. Cytogenet Genome Res 2023; 162:345-353. [PMID: 36858029 DOI: 10.1159/000527977] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2022] [Accepted: 11/07/2022] [Indexed: 03/03/2023] Open
Abstract
Abortion is a common pregnancy complication. Fetuses with several types of chromosomal abnormalities are aborted during the first trimester, while others have a better chance of surviving. This research aims to study and compare the incidence and types of fetal chromosomal abnormalities during the first trimester of Thai pregnant women between miscarriages and intrauterine survivals. Cytogenetic and BACs-on-Beads™ assays were assessed from 2010 to 2020 in Ramathibodi Hospital using first trimester samples of 265 chorionic villi as a retrospective study. Chromosomal abnormalities were observed in 135 cases (50.94%) including 38.11% miscarriages and 12.83% intrauterine survivals. In total, 75.56% single autosomal trisomies, 18.52% sex chromosome aneuploidies, 5.19% double aneuploidies, and 0.74% structural abnormalities were detected. In miscarriages, all chromosomes were involved in abnormalities except chromosomes 1, 5, 8, 9, 11, and 17, while survivals had only trisomy 13, 18, 21, and sex chromosome aneuploidy. Trisomy 16 and 18 were the most common abnormalities in miscarriages and intrauterine survivals, respectively. The highest rate of chromosomal aberrations was demonstrated in 8-9+6 and 12-13+6 weeks of gestation in miscarriages and intrauterine survivals, respectively. Correlation between chromosomal abnormalities and maternal age <35 years and ≥35 years was significant (p < 0.05) in intrauterine survival and first trimester groups.
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Affiliation(s)
- Rachanee Parinayok
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Prapatsorn Areesirisuk
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Takol Chareonsirisuthigul
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Warakorn Buchachat
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Budsaba Rerkamnuaychoke
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
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Wongtienchai P, Lapbenjakul S, Jangtarwan K, Areesirisuk P, Mahaprom R, Subpayakom N, Singchat W, Sillapaprayoon S, Muangmai N, Songchan R, Baicharoen S, Duengkae P, Peyachoknagul S, Srikulnath K. Genetic management of a water monitor lizard (
Varanus salvator macromaculatus
) population at Bang Kachao Peninsula as a consequence of urbanization with Varanus Farm Kamphaeng Saen as the first captive research establishment. J ZOOL SYST EVOL RES 2020. [DOI: 10.1111/jzs.12436] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Affiliation(s)
- Parinya Wongtienchai
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
| | - Sorravis Lapbenjakul
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
| | - Kornsuang Jangtarwan
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
- Special Research Unit for Wildlife Genomics (SRUWG) Department of Forest Biology Faculty of Forestry Kasetsart University Bangkok Thailand
| | - Prapatsorn Areesirisuk
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
| | - Rujira Mahaprom
- Bureau of Conservation and Research Zoological Park Organization under the Royal Patronage of His Majesty the King Bangkok Thailand
| | - Navapong Subpayakom
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
- Special Research Unit for Wildlife Genomics (SRUWG) Department of Forest Biology Faculty of Forestry Kasetsart University Bangkok Thailand
| | - Worapong Singchat
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
- Special Research Unit for Wildlife Genomics (SRUWG) Department of Forest Biology Faculty of Forestry Kasetsart University Bangkok Thailand
| | - Siwapech Sillapaprayoon
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
- Special Research Unit for Wildlife Genomics (SRUWG) Department of Forest Biology Faculty of Forestry Kasetsart University Bangkok Thailand
| | - Narongrit Muangmai
- Department of Fishery Biology Faculty of Fisheries Kasetsart University Bangkok Thailand
| | - Ruthairat Songchan
- Wildlife Research Division National Park, Wildlife and Plant Conservation Department Bangkok Thailand
| | - Sudarath Baicharoen
- Bureau of Conservation and Research Zoological Park Organization under the Royal Patronage of His Majesty the King Bangkok Thailand
| | - Prateep Duengkae
- Special Research Unit for Wildlife Genomics (SRUWG) Department of Forest Biology Faculty of Forestry Kasetsart University Bangkok Thailand
- Center for Advanced Studies in Tropical Natural Resources National Research University‐Kasetsart University (CASTNAR, NRU‐KU) Kasetsart University Bangkok Thailand
| | - Surin Peyachoknagul
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
| | - Kornsorn Srikulnath
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG) Department of Genetics Faculty of Science Kasetsart University Bangkok Thailand
- Special Research Unit for Wildlife Genomics (SRUWG) Department of Forest Biology Faculty of Forestry Kasetsart University Bangkok Thailand
- Center for Advanced Studies in Tropical Natural Resources National Research University‐Kasetsart University (CASTNAR, NRU‐KU) Kasetsart University Bangkok Thailand
- Center of Excellence on Agricultural Biotechnology: (AG‐BIO/PERDO‐CHE) Bangkok Thailand
- Amphibian Research Center Hiroshima University Higashihiroshima Japan
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Dokrungkoon T, Onsod P, Areesirisuk P, Rerkamnuaychoke B, Vanikieti K, Chareonsirisuthigul T. Performance of the MLPA technique for detecting common mutations in Leber hereditary optic neuropathy. Mitochondrial DNA A DNA Mapp Seq Anal 2019; 30:819-824. [PMID: 31566038 DOI: 10.1080/24701394.2019.1670819] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2022]
Abstract
Leber hereditary optic neuropathy (LHON) causes painless vision loss resulting from mitochondrial DNA (mtDNA) mutation. Over 95% of LHON cases result from one of three mtDNA point mutations (m.3460G>A, m.11778G>A, and m.14484T>C). There is no established cure for LHON; early and accurate diagnosis would enable patients to be given appropriate treatments leading to a reduction of the disease progression. To increase the accessibility to molecular genetic testing for LHON, an accurate and cost-effective technique is required. The purpose of this study was to evaluate the accuracy of multiplex ligation-dependent probe amplification (MLPA) for detecting the three common mutations in 18 LHON blood specimens. Validation of the results using direct DNA sequencing technology proved that the MLPA technique had 100% accuracy, with no false-positive results. This study demonstrates that MLPA could provide a highly accurate, economical, and widely accessible technique for routine molecular genetic testing for mitochondrial disorders.
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Affiliation(s)
- Thanadon Dokrungkoon
- Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Preyaporn Onsod
- Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Prapatsorn Areesirisuk
- Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Budsaba Rerkamnuaychoke
- Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Kavin Vanikieti
- Department of Ophthalmology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Takol Chareonsirisuthigul
- Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
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6
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Singchat W, Areesirisuk P, Sillapaprayoon S, Muangmai N, Baicharoen S, Suntrarachun S, Chanhome L, Peyachoknagul S, Srikulnath K. Complete mitochondrial genome of Siamese cobra ( Naja kaouthia) determined using next-generation sequencing. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2018.1558123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Affiliation(s)
- Worapong Singchat
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
| | - Prapatsorn Areesirisuk
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Siwapech Sillapaprayoon
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
| | - Narongrit Muangmai
- Department of Fishery Biology, Faculty of Fisheries, Kasetsart University, Bangkok, Thailand
| | - Sudarath Baicharoen
- Zoological Park Organization under the Royal Patronage of His Majesty the King, Bureau of Conservation and Research, Bangkok, Thailand
| | - Sunutcha Suntrarachun
- The Thai Red Cross Society, Queen Saovabha Memorial Institute, Bangkok, 10330, Thailand
| | - Lawan Chanhome
- The Thai Red Cross Society, Queen Saovabha Memorial Institute, Bangkok, 10330, Thailand
| | - Surin Peyachoknagul
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Department of Biology, Faculty of Science, Naresuan University, Phitsanulok, Thailand
| | - Kornsorn Srikulnath
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
- Center of Excellence on Agricultural Biotechnology: (AG-BIO/PERDO-CHE), Bangkok, Thailand
- Center for Advanced Studies in Tropical Natural Resources, National Research University–Kasetsart University, Bangkok, Thailand (CASTNAR, NRU-KU, Thailand)
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7
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Ponjarat J, Areesirisuk P, Prakhongcheep O, Dokkaew S, Sillapaprayoon S, Muangmai N, Peyachoknagul S, Srikulnath K. Complete mitochondrial genome of two mouthbrooding fighting fishes, Betta apollonand B. simplex(Teleostei: Osphronemidae). Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2019.1572463] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Affiliation(s)
- Jatupong Ponjarat
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Chatuchak, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Chatuchak, Bangkok, Thailand
| | - Prapatsorn Areesirisuk
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Chatuchak, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Chatuchak, Bangkok, Thailand
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Ornjira Prakhongcheep
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Chatuchak, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Chatuchak, Bangkok, Thailand
| | - Sahabhop Dokkaew
- Department of Aquaculture, Faculty of Fisheries, Kasetsart University, Chatuchak, Bangkok, Thailand
| | - Siwapech Sillapaprayoon
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Chatuchak, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Chatuchak, Bangkok, Thailand
| | - Narongrit Muangmai
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Chatuchak, Bangkok, Thailand
- Department of Fishery Biology, Faculty of Fisheries, Kasetsart University, Chatuchak, Bangkok, Thailand
| | - Surin Peyachoknagul
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Chatuchak, Bangkok, Thailand
- Department of Biology, Faculty of Science, Naresuan University, Phitsanulok, Thailand
| | - Kornsorn Srikulnath
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Chatuchak, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Chatuchak, Bangkok, Thailand
- Center of Excellence on Agricultural Biotechnology: (AG-BIO/PERDO-CHE), Bangkok, Thailand
- Center for Advanced Studies in Tropical Natural Resources, Kasetsart University, Bangkok, Thailand
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Thongtam Na Ayudhaya P, Areesirisuk P, Singchat W, Sillapaprayoon S, Muangmai N, Peyachoknagul S, Srikulnath K. Complete mitochondrial genome of 10 anemonefishes belonging to Amphiprion and Premnas. Mitochondrial DNA B Resour 2019. [DOI: 10.1080/23802359.2018.1546145] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Affiliation(s)
- Pradipunt Thongtam Na Ayudhaya
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Faculty of Science, Department of Genetics, Kasetsart University, Bangkok, Thailand
- Biology Program, Faculty of Science and Technology, Phetchaburi Rajabahat University, Phetchaburi, Thailand
| | - Prapatsorn Areesirisuk
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Faculty of Science, Department of Genetics, Kasetsart University, Bangkok, Thailand
- Human Genetic Laboratory, Faculty of Medicine, Department of Pathology, Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
| | - Worapong Singchat
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Faculty of Science, Department of Genetics, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
| | - Siwapech Sillapaprayoon
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Faculty of Science, Department of Genetics, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
| | - Narongrit Muangmai
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
- Faculty of Fisheries, Department of Fishery Biology, Kasetsart University, Bangkok, Thailand
| | - Surin Peyachoknagul
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Faculty of Science, Department of Genetics, Kasetsart University, Bangkok, Thailand
- Faculty of Science, Department of Biology, Naresuan University, Phitsanulok, Thailand
| | - Kornsorn Srikulnath
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Faculty of Science, Department of Genetics, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Bangkok, Thailand
- Center of Excellence on Agricultural Biotechnology: (AG-BIO/PERDO-CHE), Bangkok, Thailand
- Center for Advanced Studies in Tropical Natural Resources, National Research University-Kasetsart University Kasetsart University, Bangkok, Thailand
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9
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Areesirisuk P, Muangmai N, Kunya K, Singchat W, Sillapaprayoon S, Lapbenjakul S, Thapana W, Kantachumpoo A, Baicharoen S, Rerkamnuaychoke B, Peyachoknagul S, Han K, Srikulnath K. Characterization of five complete Cyrtodactylus mitogenome structures reveals low structural diversity and conservation of repeated sequences in the lineage. PeerJ 2018; 6:e6121. [PMID: 30581685 PMCID: PMC6295329 DOI: 10.7717/peerj.6121] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2018] [Accepted: 11/15/2018] [Indexed: 12/27/2022] Open
Abstract
Mitochondrial genomes (mitogenomes) of five Cyrtodactylus were determined. Their compositions and structures were similar to most of the available gecko lizard mitogenomes as 13 protein-coding, two rRNA and 22 tRNA genes. The non-coding control region (CR) of almost all Cyrtodactylus mitogenome structures contained a repeated sequence named the 75-bp box family, except for C. auribalteatus which contained the 225-bp box. Sequence similarities indicated that the 225-bp box resulted from the duplication event of 75-bp boxes, followed by homogenization and fixation in C. auribalteatus. The 75-bp box family was found in most gecko lizards with high conservation (55-75% similarities) and could form secondary structures, suggesting that this repeated sequence family played an important role under selective pressure and might involve mitogenome replication and the likelihood of rearrangements in CR. The 75-bp box family was acquired in the common ancestral genome of the gecko lizard, evolving gradually through each lineage by independent nucleotide mutation. Comparison of gecko lizard mitogenomes revealed low structural diversity with at least six types of mitochondrial gene rearrangements. Cyrtodactylus mitogenome structure showed the same gene rearrangement as found in most gecko lizards. Advanced mitogenome information will enable a better understanding of structure evolution mechanisms.
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Affiliation(s)
- Prapatsorn Areesirisuk
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
| | - Narongrit Muangmai
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
- Department of Fishery Biology, Faculty of Fisheries, Kasetsart University, Bangkok, Thailand
| | - Kirati Kunya
- Nakhon Ratchasima Zoo, Nakhon Ratchasima, Thailand
| | - Worapong Singchat
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
| | - Siwapech Sillapaprayoon
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
| | - Sorravis Lapbenjakul
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
| | - Watcharaporn Thapana
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
- Center for Advanced Studies in Tropical Natural Resources, National Research University-Kasetsart University (CASTNAR, NRU-KU, Thailand), Kasetsart University, Bangkok, Thailand
| | - Attachai Kantachumpoo
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
- Center for Advanced Studies in Tropical Natural Resources, National Research University-Kasetsart University (CASTNAR, NRU-KU, Thailand), Kasetsart University, Bangkok, Thailand
| | - Sudarath Baicharoen
- Bureau of Conservation and Research, Zoological Park Organization under the Royal Patronage of His Majesty the King, Bangkok, Thailand
| | - Budsaba Rerkamnuaychoke
- Human Genetic Laboratory, Department of Pathology, Faculty of Medicine Ramathibodi Hospital, Mahidol University, Bangkok, Thailand
| | - Surin Peyachoknagul
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Department of Biology, Faculty of Science, Naresuan University, Phitsanulok, Thailand
| | - Kyudong Han
- Department of Nanobiomedical Science & BK21 PLUS NBM Global Research Center for Regenerative Medicine, Dankook University, Cheonan, Republic of Korea
| | - Kornsorn Srikulnath
- Laboratory of Animal Cytogenetics and Comparative Genomics (ACCG), Department of Genetics, Faculty of Science, Kasetsart University, Bangkok, Thailand
- Animal Breeding and Genetics Consortium of Kasetsart University (ABG-KU), Kasetsart University, Bangkok, Thailand
- Center for Advanced Studies in Tropical Natural Resources, National Research University-Kasetsart University (CASTNAR, NRU-KU, Thailand), Kasetsart University, Bangkok, Thailand
- Center of Excellence on Agricultural Biotechnology: (AG-BIO/PERDO-CHE), Bangkok, Thailand
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