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| ???org.dspace.app.webui.jsptag.ItemTag.dcfield??? | Value | Language |
|---|---|---|
| dc.contributor.advisor | 陳韋仁 | zh_TW |
| dc.contributor.advisor | Wei-Jen Chen | en |
| dc.contributor.author | 董木華 | zh_TW |
| dc.contributor.author | Pakorn Tongboonkua | en |
| dc.date.accessioned | 2025-12-31T16:25:44Z | - |
| dc.date.available | 2026-01-01 | - |
| dc.date.copyright | 2025-12-31 | - |
| dc.date.issued | 2025 | - |
| dc.date.submitted | 2025-12-16 | - |
| dc.identifier.citation | Ahlstrom, E. H., Amaoka, K., Hensley, D. A., Moser, H. G., & Sumida, B. Y. (1984). Pleuronectiformes: development. Ontogeny and Systematics of Fishes, 1, 640–670. https://doi.org/10.5962/bhl.title.4434
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| dc.identifier.uri | http://tdr.lib.ntu.edu.tw/jspui/handle/123456789/101238 | - |
| dc.description.abstract | 鮃科（Bothidae）目前包含 20 個屬、170 個物種，傳統上包含了兩個亞科，分別為線鰭鮃亞科(Taeniopsettinae)及鮃亞科(Bothinae)。該科廣泛分布於熱帶和溫帶海域，由於形態變異性、隱蔽多樣性，以及在系統發育關係上仍存疑慮，故其在系統分類學中存有尚待解決之問題。儘管過去的形態與分子研究支持鮃科為單系群，但各屬之間的親緣關係以及它們的分類有效性及物種界定，仍未獲得充分探討。這些物種分類上的不確定性阻礙了對於該科在演化、生物多樣性與生物地理學的深入探究。本研究旨在透過綜合分類學架構，透過結合分析分子系統發生學、詳細檢視形態與物種界定方法，以解決這些長期存在鮃科的分類學難題。利用兩個粒線體基因（Cytochrome C Oxidase subunit I [COI] 與 12S rRNA）與三個核基因（Early Growth Response protein 3 [EGR3]、Recombination-Activating Gene 1 [RAG1]和Rhodopsin[RH]）建立一個多基因序列矩陣，對鮃科的19 屬、87 個形態物種進行親緣關係演化重建。利用形態檢視了20 個屬中的 147 個命名種，其中包括了122筆正模標本與 682 筆非正模標本。結合重建之親緣關係與其他證據（例如：生物地理），為修訂鮃科在科級與屬級的分類奠定了基礎。親緣結果分析結果顯示Bothinae亞科為並系群，而 Taeniopsettinae 為單系群。此外，Bothinae亞科可進一步分為三個主要分支（Bothinae 1–3）。在屬的層級中，Grammatobothus 被確認為單系群（即Bothinae 1），並與其他屬形成姊妹群關係，而Arnoglossus、Laeops、Parabothus 和 Psettina這四個屬則不是單系群。因此， Taeniopsettinae亞科建議提升為獨立的科，並另外新建立兩個科，分別為Monolenidae（對應Bothinae 2）與Grammatobothidae（對應Bothinae 1），各僅包含一個屬；同時，將鮃科限制於Bothinae 3分支內。本研究建議對現時有效屬名的使用進行修訂，包括：Arnoglossus（對應Arnoglossus V）、Laeops（對應Laeops II）、Parabothus（對應 Parabothus III）、Psettina（對應 Psettina III）。另外，本研究亦建議恢復過去被視為同種異名的屬名並建立新的屬，包括Anticitharus屬、Caulopsetta屬、Psettinella屬與Scidorhombus屬。此外，基於COI 基因資料，利用兩種DNA 物種界定方法 ASAP（Assemble Species by Automatic Partitioning）與 bPTP（Bayesian Poisson Tree Processes），並結合形態特徵、棲息深度及地理分布資訊，對種層級的分類進行探討。透過綜合分類分析共界定出128種假定物種，其中包含 12 種為潛在的新物種，揭示了該科中大量未被發現的隱蔽種。總括而言，本研究是首項結合形態與分子資料，並涵蓋廣泛分類群與地理範圍，對鮃科進行全面性整合分類學修訂的研究。本研究突顯了在鮃科分類學中採用整合性研究方法的重要性，並提供堅實的系統發育架構，作為未來演化、生態與保育研究之依據。 | zh_TW |
| dc.description.abstract | The left-eyed flatfish family Bothidae comprises 170 currently recognized species in 20 genera, traditionally classified under two subfamilies (Bothinae and Taeniopsettinae). Bothids are widely distributed in tropical and temperate oceans, yet their systematics remain highly problematic due to morphological variability, cryptic diversity, and unresolved phylogenetic relationships. Although previous studies based on morphology and molecular data have supported the monophyly of the family, the intrafamilial relationships among its constituent genera, as well as the validity and boundaries of many genera, have not been thoroughly investigated. These taxonomic uncertainties hinder the understanding of bothid evolution, biodiversity, and biogeography. This study aims to address these longstanding systematic issues in Bothidae through an integrated approach that combines molecular phylogeny, detailed morphological examination, and species delimitation. A multigene phylogeny of Bothidae was reconstructed using DNA sequence data from two mitochondrial genes (Cytochrome C Oxidase subunit I [COI] and 12S rRNA) and three nuclear genes (Early Growth Response protein 3 [EGR3], Recombination-Activating Gene 1 [RAG1], and Rhodopsin [RH]) across a comprehensive taxonomic sampling comprising 87 morphospecies representing 19 genera. The morphological examination included 122 type specimens and 682 non-type specimens, representing 147 nominal species in 20 genera. Together with the reconstructed phylogeny and other available evidence (e.g., biogeography), these data formed the basis for revising for the familial- and generic-level taxonomy of Bothidae. The phylogenetic results reveal that the subfamily Bothinae is paraphyletic with respect to monophyletic Taeniopsettinae. Additionally, “Bothinae” can be subdivided into three main clades (Bothinae 1–3). At the generic level, while Grammatobothus is resolved as monophyletic (=Bothinae 1) and as the sister group to the remaining bothids, four other specious genera—Arnoglossus, Laeops, Parabothus, and Psettina—are not. Consequently, the subfamily Taeniopsettinae should be elevated to family status, two new families are newly defined—Monolenelidae (=Bothinae 2) and Grammatobothidae (=Bothinae 1)—each comprising a single genus, and restricting the family Bothidae to Bothinae 3. Revision of the usage of the valid generic names are proposed for Arnoglossus (=Arnoglossus V), Laeops (=Laeops II), Parabothus (=Parabothus III), and Psettina (=Psettina III). In addition, the resurrection of previously synonymized bothid genera (Anticitharus, Caulopsetta, Psettinella, and Scidorhombus ) and the establishment of new genera are recommended. Furthermore, the species-level taxonomy was also investigated using COI gene datasets analysed with two DNA-based species delimitation tools—Assemble Species by Automatic Partitioning (ASAP) and Bayesian Poisson Tree Processes (bPTP)—in conjunction with morphological characteristics, depth distribution, and geographic range data. This integrated approach identified a total of 128 putative species, including 12 potential new species, highlighting substantial unrecognized diversity within the Bothidae. In conclusion, this study presents the first comprehensive taxonomic revision of the Bothidae, integrating extensive morphological and molecular data across broad taxonomic and geographic ranges. The findings highlight the importance of integrative approaches in flatfish taxonomy and establish a robust phylogenetic framework for future evolutionary, ecological, and conservation research. | en |
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| dc.description.tableofcontents | Acknowledgement iii
摘要 v Abstract vii Table of contents ix List of of tables xvi List of figures xix List of colour plates xx List of appendices xxvii List of abbreviations xxviii Chapter 1 Introduction of the Family Bothidae 1 1.1 General introduction 1 1.2 Systematics and taxonomic challenges in Bothidae 3 1.3 The aims of this study 5 Chapter 2 Morphological Characters in the Family Bothidae 29 2.1 Introduction 29 2.2 Morphological characters used in this study 30 2.2.1 Adult characters 32 2.2.1.1 Position of the first pelvic fin on the blind side to the ocular side 32 2.2.1.2 Origin of pelvic fin 32 2.2.1.3 Tip of sciatic part shape of the urohyal 32 2.2.1.4 Number of suborbital bones on the blind side 33 2.2.1.5 Number of epicranial dorsal-fin pterygiophores 33 2.2.1.6 Caudal-fin rays 33 2.2.1.7 Perforated-fin membrane 34 2.2.1.8 Gill rakers morphology 34 2.2.1.9 Pored lateral-line scales on the blind side 34 2.2.1.10 Number of vertebrae 35 2.2.1.11 Tooth morphology 35 2.2.1.12 Sexual dimorphism 35 2.2.2 Larval characters 36 2.2.2.1 Rostrum above snout 36 2.2.2.2 Size at metamorphosis 36 2.2.2.3 Elongated dorsal fin ray shape 37 2.2.2.4 Posterior basipterygial spines 37 2.2.2.5 Urohyal spines 37 Chapter 3. Phylogeny the Family Bothidae 46 3.1 Introduction 46 3.2 Material and Methods 47 3.2.1 Statement 47 3.2.2 Taxon sampling 47 3.2.3 Specimen preservation and identification 48 3.2.4 DNA extraction, amplification, and sequencing 49 3.2.5 Sequence analysis 50 3.2.6 Best-fit partitioning schemes and nucleotide substitution models 51 3.2.7 Phylogenetic analyses 52 3.3 Results 52 3.3.1 Characteristics of sequence data 52 3.3.2 Best-fit partitioning schemes and nucleotide substitution models 53 3.3.3 Phylogenetic inference 54 3.4 Discussion 56 3.4.1 Phylogeny of the Bothidae 56 3.4.1.1 Bothinae 1 57 3.4.1.2 Bothinae 2 58 3.4.1.3 Taeniopsettinae 59 3.4.1.4 Bothinae 3 60 3.4.2 Phylogenetic position of Perissias taeniopterus (Gilbert, 1890) 63 Chapter 4 Taxonomic Revision and Systematic Reassessment of the Flatfish Family Bothidae 82 4.1 Introcuction 82 4.2 Material and methods 83 4.2.1 Specimen Collection and Morphological Examination 83 4.2.2 Taxonomic Reassessment 83 4.3 Results 84 4.4 Discussion 86 4.4.1 Arnoglossus Bleeker, 1862 86 4.4.2 Laeops Günther, 1880 91 4.4.3 Parabothus Norman, 1931 92 4.4.4 Psettina Hubbs, 1915 93 4.5 Taxonomic treatment 95 4.5.1 Family Bothidae Smitt, 1892, a redefined family 95 4.5.1.1 Genus Anticitharus Günther, 1880, a resurrected genus 96 4.5.1.2 Genus Arnoglossus Bleeker, 1862, a redefined genus 98 4.5.1.3 Genus Asterorhombus Tanaka, 1915 100 4.5.1.4 Genus Bothus Rafinesque, 1810 102 4.5.1.5 Genus Caulopsetta Gill 1893, a resurrected genus 105 4.5.1.6 Genus Chascanopsetta Alcock, 1894 107 4.5.1.7 Genus Crossorhombus Regan, 1920 111 4.5.1.8 Genus Engyprosopon Günther, 1862 113 4.5.1.9 Genus Japonolaeops Amaoka, 1969 121 4.5.1.10 Genus Kamoharaia Kuronuma, 1940 122 4.5.1.11 Genus Laeops Günther, 1880 123 4.5.1.12 Genus Lophonectes Günther, 1880 127 4.5.1.13 Genus Neolaeops Amaoka, 1969 128 4.5.1.14 Genus Parabothus Norman, 1931 129 4.5.1.15 Genus Psettina Hubbs, 1915, a new defined genus 133 4.5.1.16 Genus Psettinella, Fedorov & Foroshchuk, 1993, a resurrected genus 135 4.5.1.17 Genus Scidorhombus Tanaka, 1915, a resurrected genus 136 4.5.1.18 Genus Tosarhombus Amaoka, 1969 138 4.5.1.19 Genus Gen1 gen. nov., a putative new genus 140 4.5.1.20 Genus Gen2 gen. nov., a putative new genus 143 4.5.1.21 Genus Gen3 gen. nov., a putative new genus 146 4.5.1.22 Genus Gen4 gen. nov., a putative new genus 148 4.5.1.23 Genus Gen5 gen. nov., a putative new genus 151 4.5.1.24 Genus Gen6 gen. nov., a putative new genus 153 4.5.1.25 Genus Gen7 gen. nov., a putative new genus 155 4.5.2 Family Taeniopsettidae, a newly elevated family 160 4.5.2.1 Genus Engyophrys Jordan & Bollman, 1890 161 4.5.2.2 Genus Perissias Jordan & Evermann, 1898 162 4.5.2.3 Genus Taeniopsetta Gilbert, 1905 163 4.5.2.4 Genus Trichopsetta Gill, 1889 165 4.5.3 Family Monolenidae Tongboonkua, Chanet, and Chen 2025, a newly created family 166 4.5.3.1 Genus Monolene, Goode, 1880 167 4.5.4 Family Grammatobothidae Tongboonkua, Chanet, and Chen 2025, a newly created subfamily 169 4.5.4.1 Grammatobothus Norman, 1926 170 4.6 Taxonomic Conclusions 171 4.6.1 Family Bothidae Smitt, 1892 172 4.6.2 Family Taeniopsettidae Amaoka, 1969 173 4.6.3 Family Monolenidae Tongboonkua, Chanet and Chen, 2025 173 4.6.4 Family Grammatobothidae Tongboonkua, Chanet and Chen, 2025 174 4.7 Key to genera of the Bothidae, Taeniopsettidae, Monolenidae, and Grammatobothidae 174 Chapter 5 Species Delimitation and Diversity Assessment in the Family Bothidae, Taeniopsettidae, Monolenidae, and Grammatobothidae 180 5.1 Introduction 180 5.2 Material and methods 182 5.2.1 Taxon sampling 182 5.2.2 Molecular data collection and phylogenetic reconstruction 182 5.2.3 Species delimitation analyses 183 5.3 Results 185 5.3.1 Characteristics and Phylogenetic Inference of COI 185 5.3.2 Species delimitations 185 5.4 Discussion 186 5.4.1 Exploration of species diversity in the Bothidae 186 5.4.1.1 Family Bothidae 187 5.4.1.1.1 Genus Anticitharus Günther, 1880 187 5.4.1.1.1 Genus Arnoglossus Bleeker, 1862 189 5.4.1.1.2.1 Arnoglossus Bleeker, 1862 (clade V) 189 5.4.1.1.2.2 Arnoglossus II, putative new genus 195 5.4.1.1.2.3 Arnoglossus III, putative new genus 200 5.4.1.1.2.4 Arnoglossus IX, putative new genus 201 5.4.1.1.2.5 Arnoglossus X, putative new genus 202 5.4.1.1.2.6 Unresolved taxonomic status in Arnoglossus 203 5.4.1.1.3 Genus Asterorhombus Tanaka, 1915 204 5.4.1.1.4 Genus Bothus Rafinesque, 1810 207 5.4.1.1.5 Genus Caulopsetta Gill, 1893 217 5.4.1.1.6 Genus Chascanopsetta Alcock, 1894 220 5.4.1.1.7 Genus Crossorhombus Regan, 1920 227 5.4.1.1.8 Genus Engyprosopon Günther, 1862 231 5.4.1.1.9 Genus Japonolaeops Amaoka, 1969 241 5.4.1.1.10 Genus Kamoharaia Kuronuma, 1940 243 5.4.1.1.11 Genus Laeops Günther, 1880 243 5.4.1.1.11.1 Laeops Günther, 1880 (clade II) 244 5.4.1.1.11.2 Laeops I, putative new genus 253 5.4.1.1.12 Genus Lophonectes Günther, 1880 254 5.4.1.1.13 Genus Neolaeops Amaoka, 1969 255 5.4.1.1.14 Genus Parabothus Norman, 1931 256 5.4.1.1.14.1 Parabothus Norman, 1931 (clade III) 256 5.4.1.1.14.2 Parabothus I, putative new genus 260 5.4.1.1.14.3 Parabothus II, putative new genus 260 5.4.1.1.14.3 Parabothus IV+V, putative new genus 261 5.4.1.1.15 Genus Psettina Hubbs, 1915 263 5.4.1.1.15.1 Psettina Hubbs, 1915 (clade III) 263 5.4.1.1.15.2 Psettina I, putative new genus 266 5.4.1.1.15.3 Psettina II, putative new genus 267 5.4.1.1.16 Genus Psettinella Fedorov & Foroshchuk, 1993 268 5.4.1.1.17 Genus Scidorhombus Tanaka, 1915 269 5.4.1.1.18 Genus Tosarhombus Amaoka, 1969 271 5.4.1.2 Family Taeniopsettidae 274 5.4.1.2.1 Genus Engyophrys Jordan & Bollman, 1890 274 5.4.1.2.2 Genus Perissias Jordan & Evermann, 1898 276 5.4.1.2.3 Genus Taeniopsetta Gilbert, 1905 277 5.4.1.2.4 Genus Trichopsetta Gill, 1889 278 5.4.1.3 Family Monolenidae 280 5.4.1.3.1 Genus Monolene Goode, 1880 280 5.4.1.4 Family Grammatobothidae 285 5.4.1.4.1 Genus Grammatobothus 285 Chapter 6 Conclusion and Perspectives 334 References 338 | - |
| dc.language.iso | en | - |
| dc.subject | 系統分類學 | - |
| dc.subject | 多基因系統發育 | - |
| dc.subject | 形態學 | - |
| dc.subject | 鰈亞目 | - |
| dc.subject | 鮃科 | - |
| dc.subject | 新科建立 | - |
| dc.subject | systematics | - |
| dc.subject | multigene phylogeny | - |
| dc.subject | morphology | - |
| dc.subject | Pleuronectoidei | - |
| dc.subject | left-eyed flounder | - |
| dc.subject | new family | - |
| dc.title | 比目魚鮃科魚類親緣關係、物種界定及分類修訂 （真骨魚類：鰺形亞目） | zh_TW |
| dc.title | Phylogeny, Species Delimitation and Taxonomic Revision of the Flatfish Family Bothidae (Teleostei: Carangiformes) | en |
| dc.type | Thesis | - |
| dc.date.schoolyear | 114-1 | - |
| dc.description.degree | 博士 | - |
| dc.contributor.oralexamcommittee | 蕭仁傑;林秀瑾;莫顯蕎;葉信明 | zh_TW |
| dc.contributor.oralexamcommittee | Jen-Chieh Shiao;Hsiu-Chin Lin;Hin-Kiu Mok;Hsin-Ming Yeh | en |
| dc.subject.keyword | 系統分類學,多基因系統發育形態學鰈亞目鮃科新科建立 | zh_TW |
| dc.subject.keyword | systematics,multigene phylogenymorphologyPleuronectoideileft-eyed floundernew family | en |
| dc.relation.page | 628 | - |
| dc.identifier.doi | 10.6342/NTU202504736 | - |
| dc.rights.note | 同意授權(全球公開) | - |
| dc.date.accepted | 2025-12-16 | - |
| dc.contributor.author-college | 理學院 | - |
| dc.contributor.author-dept | 海洋研究所 | - |
| dc.date.embargo-lift | 2030-12-11 | - |
| Appears in Collections: | 海洋研究所 | |
Files in This Item:
| File | Size | Format | |
|---|---|---|---|
| ntu-114-1.pdf Until 2030-12-11 | 186.97 MB | Adobe PDF |
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