Research Fields

• Systematics
• Conservation
• The interface between Microevolutionary and Macroevolutionary processes

Research Directions

1. Speciation and integrative species delimitation.
2. The prevalence and consequence of genetic interchange between evolutionary units (gene flow and genetic introgression).
3. Phylogeography, Biogeography, and the interface.
4. Conservation and the genetic and phenotypic consequences of biological invasion.

期刊論文

1. Lin Pei-Chen, Wu Cheng-Wei, Lee Cheng-Ruei, Huang Jen-Pan, Lin Chung-Ping, Wang Liang-Jong, Hsu Yu-Hsun, 2026, “Detecting local adaptation under weak genetic structure in an endemic damselfly: an integrative eco-evolutionary approach”, BMC Ecology and Evolution, 26(1), 1. (SCIE) (IF: 2.6; SCI ranking: 41.4%,41.2%,46.7%)
2. de Abreu John, Barcenas-Peña Alejandrina, Poengsungnoen Vasun, Wang Xinyu, Huang Jen-Pan, Lumbsch Helge Thorsten, Grewe Felix, 2026, “High-Throughput Sequencing Supports Strong Geographical Patterns in the Cladia aggregata Complex (Ascomycota, Lecanorales) and Identifies the Asian Clade as an Independent Species”, Journal of Fungi, 12, 90. (SCIE) (IF: 4; SCI ranking: 31.9%,24.1%)
3. Chen Wei‐Yun, Sun Yi, Wu Shu‐Ping, Huang Jen‐Pan*, 2026, “Genomic Evidence of Low Contemporary Effective Population Size and Southern Genetic Reservoirs in an Island Endemic Epiphytic Orchid of Taiwan”, Ecology and Evolution, 16, 1. (SCIE) (IF: 2.3; SCI ranking: 50.9%,49%)
4. Lebreton Elise, Ertz Damien, Lücking Robert, Aptroot Andre, Carriconde Fabian, Ah-Peng Claudine, Huang Jen-Pan, Chen Ko-Hsuan, Stenger Pierre-Louis, Cáceres Marcela Eugenia da Silva, van den Boom Pieter, Sérusiaux Emmanuël, Magain Nicolas, 2025, “Global phylogeny of the family Gomphillaceae (Ascomycota, Graphidales) sheds light on the origin, diversification and endemism in foliicolous lineages”, IMA Fungus, 16, 1. (SCIE) (IF: 6.2; SCI ranking: 17.2%)
5. Lin Tzong‐Han, Shen Zong‐Yu, Chou Ming‐Hsun, Sun Pei‐Wei, Shen Chin‐Chia, Huang Jen‐Pan, Lin Si‐Min, 2025, “Allopatric Speciation and Interspecific Gene Flow Driven by Niche Conservatism of <i>Diploderma</i> Tree Lizards in Taiwan”, Molecular Ecology, 1, 1. (SCIE) (IF: 3.9; SCI ranking: 36.6%,20.1%,17.6%)
6. Shen Zong-Yu, Le My-Hanh, Chou Ming-Hsun, Huang Jen-Pan*, 2025, “A reference genome enhances the power to detect signatures of recent anthropogenic impact in genomic data: a lesson learned from a stag beetle system”, BMC Biology, 23(1), 1. (SCIE) (IF: 4.5; SCI ranking: 17%)
7. Le My-Hanh, Proctor Max, Huang Jen-Pan*, 2025, “Chromosome Level Genome Assembly of <i>Dynastes reidi</i> Reveals Structural Evolution of Autosomes and the Sex Chromosomes in Hercules Beetles”, G3: Genes, Genomes, Genetics, 1, 1. (SCIE) (IF: 　; 　)
8. Huang Jen-Pan*, Wu Shu-Ping, Chen Wei-Yun, Pham Guan Jie, Kuan Yi-Hsiu, 2024, “Genomic data revealed inbreeding despite a geographically connected stable effective population size since the Holocene in the protected Formosan Long-Arm Scarab beetle, <i>Cheirotonus formosanus</i>”, Journal of Heredity, 115(3), 292-301. (SCIE) (IF: 2.5; SCI ranking: 47.1%,49.7%)
9. Han Chiao-Jung, Huang Jen-Pan, Chiang Min-Rou, Jean Ok Shin Malagayo, Nand Nitesh, Etebari Kayvan, Shelomi Matan, 2024, “The hindgut microbiota of coconut rhinoceros beetles Oryctes rhinoceros in relation to their geographical populations”, Applied and Environmental Microbiology, 1, 1. (SCIE) (IF: 3.7; SCI ranking: 32.1%,39.3%)
10. Le My‐Hanh, Morgan Brett, Lu Mei‐Yeh, Moctezuma Victor, Burgos Oscar, Huang Jen‐Pan*, 2024, “The genomes of Hercules beetles reveal putative adaptive loci and distinct demographic histories in pristine North American forests”, Molecular Ecology Resources, 24(2), e13908. (SCIE) (IF: 5.5; SCI ranking: 19%,10.7%,11.8%)
11. Fikáček Martin, Hu Fang‐Shuo, Le My‐Hanh, Huang Jen‐Pan, 2024, “Can immature stages be ignored in studies of forest leaf litter arthropod diversity? A test using <scp>Oxford</scp> Nanopore <scp>DNA</scp> barcoding”, Insect Conservation and Diversity, 17(1), 31-50. (SCIE) (IF: 3.2; SCI ranking: 11%)
12. Shen Zong-Yu, Terada Takeshi, Landry Jean-François, Hoare Robert J.B., Kuo Li-Yaung, Chou Ming-Hsun, Hsu Yu-Feng, Huang Jen-Pan*, 2024, “Systematics and evolutionary dynamics of insect-fern interactions in the specialized fern-spore feeding Cuprininae (Lepidoptera, Stathmopodidae)”, Molecular Phylogenetics and Evolution, 1, 108040. (SCIE) (IF: 3.6; SCI ranking: 41.9%,23.5%,30.8%)
13. Jen-Pan Huang*, Wei-Yun Chen, My Hanh Le, 2023, “Genetic Assessment of Fertile F1 Hybrids between Two Hercules Beetles, Dynastes maya Hardy and D. grantii Horn (Scarabaeidae)”, ZOOLOGICAL STUDIES, 62, e13. (SCIE) (IF: 1.4; SCI ranking: 38.4%)
14. De Vivo Mattia, Chou Min‐Hsun, Wu Shu‐Ping, Kuan Yi‐Hsiu, Chen Wei‐Yun, Wang Liang‐Jong, Morgan Brett, Phang Guan‐Jie, Huang Jen‐Pan*, 2023, “Genomic tools for comparative conservation genetics among three recently diverged stag beetles (<i>Lucanus</i>, <scp>Lucanidae</scp>)”, Insect Conservation and Diversity, 16(6), 853-869. (SCIE) (IF: 3.2; SCI ranking: 11%)
15. De Vivo Mattia, Chen Wei-Yun, Huang Jen-Pan, 2023, “Testing the efficacy of different molecular tools for parasite conservation genetics: a case study using horsehair worms (Phylum: Nematomorpha)”, Parasitology, 150(9), 842-851. (SCIE) (IF: 2.4; SCI ranking: 38.5%)
16. De Vivo Mattia, Huang Jen‐Pan, 2022, “Modeling the geographical distributions of <i>Chordodes formosanus</i> and its mantis hosts in Taiwan, with considerations for their niche overlaps”, Ecology and Evolution, 12(11), 1. (SCIE) (IF: 2.3; SCI ranking: 50.9%,49%)
17. Ye Yan-Jhih, Huang Jen-Pan, Nguyen Hung N, Villanueva Reagan Joseph T, Amarga Ace Kevin S, Tseng Hui-Yun, 2022, “Comparative Phylogeography in the Taiwan–Luzon Volcanic Belt Indicates Fast Diversification History of <i>Pachyrhynchus</i> Weevils (Coleoptera: Curculionidae)”, Insect Systematics and Diversity, 6(6), 4. (SCIE) (IF: 3.1; SCI ranking: 12%)
18. Lee Tracy Jiaye, Liu Yu-Ching, Liu Wei-An, Lin Yu-Fei, Lee Hsin-Han, Ke Huei-Mien, Huang Jen-Pan, Lu Mei-Yeh Jade, Hsieh Chia-Lun, Chung Kuo-Fang, Liti Gianni, Tsai Isheng Jason, 2022, “Extensive sampling of <i>Saccharomyces cerevisiae</i> in Taiwan reveals ecology and evolution of predomesticated lineages”, Genome Research, 32, 864-877. (SCIE) (IF: 5.5; SCI ranking: 19%,13.5%,10.7%)
19. Keuler Rachel, Jensen Jacob, Barcena-Peña Alejandrina, Grewe Felix, Thorsten Lumbsch H., Huang Jen-Pan, Leavitt Steven D., 2022, “Interpreting phylogenetic conflict: Hybridization in the most speciose genus of lichen-forming fungi”, Molecular Phylogenetics and Evolution, 174, 107543. (SCIE) (IF: 3.6; SCI ranking: 41.9%,23.5%,30.8%)
20. Chou Ming-Hsun, Chu I-Hsuan, Lau Daniel, Huang Jen-Pan*, 2022, “Integrative species delimitation reveals fine-scale allopatric speciation in a good-flying insect: a case study on Cylindera pseudocylindriformis complex (Coleoptera, Cicindelidae)”, Invertebrate Systematics, 36(10), 910. (SCIE) (IF: 1.9; SCI ranking: 68.6%,19.8%)
21. Wang Liang-Jong, Chou Yen-Wei, Huang Jen-Pan*, 2022, “Testing the Effect of Sampling Effort on Inferring Phylogeographic History in Psolodesmus mandarinus (Calopterygidae, Odonata)”, Diversity-Basel, 14(10), 809. (SCIE) (IF: 2.1; SCI ranking: 41.9%,57.4%)
22. Morgan Brett, Wang Tzi-Yuan, Chen Yi-Zhen, Moctezuma Victor, Burgos Oscar, Le My Hanh, Huang Jen-Pan*, 2022, “Long-read Sequencing Data Reveals Dynamic Evolution of Mitochondrial Genome Size and the Phylogenetic Utility of Mitochondrial DNA in Hercules Beetles (<i>Dynastes</i>; Scarabaeidae)”, Genome Biology and Evolution, 14(10), 1-14. (SCIE) (IF: 2.8; SCI ranking: 35.3%,41.4%)
23. Morgan Brett, Huang Jen-Pan*, 2021, “Isolation by geographical distance after release from Pleistocene refugia explains genetic and phenotypic variation in Xylotrupes siamensis (Coleoptera: Scarabaeidae)”, Zoological Journal of the Linnean Society, 192(1), 117–129. (SCIE) (IF: 2.8; SCI ranking: 6.2%)
24. White Dawson M, Huang Jen-Pan, Jara-Muñoz Orlando Adolfo, MadriñáN Santiago, Ree Richard H, Mason-Gamer Roberta J, 2021, “The Origins of Coca: Museum Genomics Reveals Multiple Independent Domestications from Progenitor Erythroxylum gracilipes”, Systematic Biology, 70(1), 1-13.
25. De Vivo Mattia, Wang Wen-Hong, Chen Ko-Hsuan, Huang Jen-Pan, 2021, “First detection of Colletotrichum fructicola (Ascomycota) on horsehair worms (Nematomorpha)”, Biodiversity Data Journal, 9, e72798. (SCIE) (IF: 1.1; SCI ranking: 75.8%)
26. Widhelm Todd J., Grewe Felix, Huang Jen‐Pan, Ramanauskas Karolis, Mason‐Gamer Roberta, Lumbsch H. Thorsten, 2021, “Using RADseq to understand the circum‐Antarctic distribution of a lichenized fungus, Pseudocyphellaria glabra”, Journal of Biogeography, 48(1), 78-90. (SCIE) (IF: 3.6; SCI ranking: 25.4%,26.5%)
27. Huang Jen‐Pan, Morgan Brett, 2021, “Evolution of adult male horn developmental phenotypes and character displacement in Xylotrupes beetles (Scarabaeidae)”, Ecology and Evolution, 11(10), 5503-5510. (SCIE) (IF: 2.3; SCI ranking: 50.9%,49%)
28. Huang Jen-Pan, 2021, “The Genealogical Divergence Index Across a Speciation Continuum in Hercules Beetles”, Insect Systematics and Diversity, 5(6), 1. (SCIE) (IF: 3.1; SCI ranking: 12%)
29. Chou Ming-Hsun, Tseng Wei-Zhe, Sang Yao-De, Morgan Brett, De Vivo Mattia, Kuan Yi-Hsiu, Wang Liang-Jong, Chen Wei-Yun, Huang Jen-Pan, 2021, “Incipient speciation and its impact on taxonomic decision: a case study using a sky island sister-species pair of stag beetles (Lucanidae: Lucanus)”, Biological Journal of the Linnean Society, 134(3), 745-759. (SCIE) (IF: 1.5; SCI ranking: 84.3%)