Integrative taxonomy reveals a new cryptic species of Raphidopus Stimpson, 1858 (Decapoda, Anomura, Porcellanidae) from the Yellow Sea and East China Sea

  • Bin Wang Laboratory of Marine Organism Taxonomy and Phylogeny, Shandong Province Key Laboratory of Marine Biodiversity and Bio-resource Sustainable Utilization, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
  • Yuhan Wan Laboratory of Marine Organism Taxonomy and Phylogeny, Shandong Province Key Laboratory of Marine Biodiversity and Bio-resource Sustainable Utilization, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China
  • Xuefeng Fang State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, China
  • Jian-Wen Qiu Southern Marine Science and Engineering Guangdong Laboratory (Guangzhou), Guangzhou 511458, China
  • Dong Dong Laboratory of Marine Organism Taxonomy and Phylogeny, Shandong Province Key Laboratory of Marine Biodiversity and Bio-resource Sustainable Utilization, Institute of Oceanology, Chinese Academy of Sciences, Qingdao 266071, China https://orcid.org/0000-0002-8087-7763
Keywords: China seas, phylogeny, porcelain crab, taxonomy, West Pacific

Abstract

Raphidopus ciliatus Stimpson, 1858 is believed to be widely distributed across the Indo-West Pacific and has been reported along the entire coast of China. However, molecular and morphological analyses reveal the presence of a cryptic species in northern Chinese waters, described herein as R. xinzhengi Dong, Wan & Wang sp. nov. The COI sequences of the two species of Raphidopus show 8.7–9.0% divergence, higher than each intraspecific variation. The new species can be distinguished from R. ciliatus primarily by the arrangement of granules on the cheliped carpus, the length/width ratio of the cheliped carpus, and the length/width ratio of the merus of the first ambulatory leg. An updated key to the species of the genus Raphidopus is provided.

References

Burland T.G. 2000. DNASTAR’s lasergene sequence analysis software. Methods in Molecular Biology 132: 71–91. https://doi.org/10.1385/1-59259-192-2:71

Dong D., Xu P., Li X. & Wang C. 2019. Munidopsis species (Crustacea: Decapoda: Munidopsidae) from carcass falls in Weijia Guyot, West Pacific, with recognition of a new species based on integrative taxonomy. PeerJ 7: e8089. https://doi.org/10.7717/peerj.8089

Evans A.C. 1967. Syntypes of Decapoda described by William Stimpson and James Dana in the collections of the British Museum (Natural History). Journal of Natural History 1 (3): 399–411. https://doi.org/10.1080/00222936700770391

Fang X., Dong D., Yang M. & Li X. 2023. Phylogenetics and population genetics of the Petrolisthes lamarckii–P. haswelli complex in China: Old lineage and new species. International Journal of Molecular Sciences 24 (21): 15843. https://doi.org/10.3390/ijms242115843

Folmer O., Black M., Hoeh W., Lutz R. & Vrijenhoek R. 1994. DNA primers for amplification of mitochondrial cytochrome C oxidase subunit I from diverse metazoan invertebrates. Molecular Marine Biology and Biotechnology 3: 294–299.

Grant F.E. & McCulloch A.R. 1906. On a collection of Crustacea from the Port Curtis District, Queensland. Proceedings of the Linnean Society of New South Wales 31: 2–53.

Haig J. 1965. The Porcellanidae (Crustacea, Anomura) of Western Australia), with descriptions of four new Australian species. Journal of the Royal Society of Western Australia 48 (4): 97–118.

Haig J. 1966. The Porcellanidae (Crustacea Anomura) of the Iranian Gulf and Gulf of Oman. Videnskabelige Meddelelser Dansk Naturhistrisk Forening i Kjøbenhavn 129: 49–65.

Haig J. 1981. Porcellanid crabs from the Indo-west Pacific, Part II. Steenstrupia 7: 269–291.

Haig J. 1992. Hong Kong’s porcellanid crabs. In: Morton B. (ed.) The Marine Flora and Fauna of Hong Kong and Southern China III: 303–327. Hong Kong University Press, Hong Kong.

Hebert P.D.N., Ratnasingham S. & de Waard J.R. 2003. Barcoding animal life: Cytochrome c oxidase subunit 1 divergences among closely related species. Proceedings of the Royal Society B: Biological Sciences 270 (suppl_1): S96–S99. https://doi.org/10.1098/rsbl.2003.0025

Henderson J.R. 1888. Report on the Anomura collected by H.M.S Challenger during the years 1873–1876. In: Murray J. (ed.) Zoology. Report on the Scientific Results of the Voyage of H.M.S. Challenger During the Years 1873–76 Under the Command of Captain George S. Nares, R.N., F.R.S. and the Late Captain Frank Tourle Thomson, R.N. Wyville Thomson, C. and J. Murray (series eds.) Vol. 27: i–xi, 1–221. Neill and Company, Edinburgh. https://doi.org/10.5962/bhl.title.6513

Henderson J.R. 1893. A contribution to Indian carcinology. Transactions of the Linnean Society of London, Series 2, Zoology 5 (10): 325–458. https://doi.org/10.1111/j.1096-3642.1893.tb00653.x

Hiller A. & Werding B. 2022. Multigene phylogeny of the Indo-west Pacific genus Enosteoides (Crustacea, Decapoda, Porcellanidae) with description of a new species from Australia. Zoosystematics and Evolution 98 (2): 387–397. https://doi.org/10.3897/zse.98.90540

Hsieh B.-F., Chan T.-Y. & Yu H.-P. 1997. On the porcellanid crabs (Crustacea: Decapoda: Porcellanidae) of Taiwan. Annals of the Taiwan Museum 40: 275–359.

Kalyaanamoorthy S., Minh B.Q., Wong T.K.F., von Haeseler A. & Jermiin L.S. 2017. ModelFinder: Fast model selection for accurate phylogenetic estimates. Nature Methods 14 (6): 587–589. https://doi.org/10.1038/nmeth.4285

Kim J.N. & Kim M.Y. 2017. Hermit crabs II: Arthropoda: Malacostraca: Decapoda: Axiidae, Callianassidae, Upogebiidae, Hapalogastridae, Lithodidae, Diogenidae, Paguridae, Pylochelidae, Chirostylidae, Galatheidae, Munididae, Porcellanidae, Blepharipodidae. Invertebrate Fauna of Korea 21 (43): 1–113. National Institute of Biological Resources, Incheon.

Kimura M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16 (2): 111–120. https://doi.org/10.1007/BF01731581

Kumar S., Stecher G. & Tamura K. 2016. MEGA7: Molecular Evolutionary Genetics Analysis version 7.0 for bigger datasets. Molecular Biology and Evolution 33 (7): 1870–1874. https://doi.org/10.1093/molbev/msw054

Lefébure T., Douady C.J., Gouy M. & Gibert J. 2006. Relationship between morphological taxonomy and molecular divergence within Crustacea: Proposal of a molecular threshold to help species delimitation. Molecular Phylogenetics and Evolution 40 (2): 435–447. https://doi.org/10.1016/j.ympev.2006.03.014

Leigh J.W. & Bryant D. 2015. Popart: Full-feature software for haplotype network construction. Methods in Ecology and Evolution 6 (9): 1110–1116. https://doi.org/10.1111/2041-210X.12410

Letunic I. & Bork P. 2021. Interactive tree of life (iTOL) v5: An online tool for phylogenetic tree display and annotation. Nucleic Acids Research 49 (W1): W293–W296. https://doi.org/10.1093/nar/gkab301

Mitra S., Chowdhury P. & Bose M. 2024. Raphidopus dhritiae sp. nov. (Decapoda: Anomura: Porcellanidae) from Matla River Bank of Canning, West Bengal, India. Records of Zoological Survey of India 124: 13–20. https://doi.org/10.26515/rzsi/v124/i1S/2024/172711

Miyake S. 1943. Studies on the crab-shaped Anomura of Nippon and adjacent waters. Journal of the Department of Agriculture, Kyushu Imperial University 7: 49–158.

Ng P.K.L. & Nakasone Y. 1994. On the porcellanid genera Raphidopus Stimpson, 1858, and Pseudopor-cellanella Sankarankutty, 1961, with description of a new mangrove species, Raphidopus johnsoni from Singapore (Decapoda, Anomura). Crustaceana 66 (1): 1–21. https://doi.org/10.1163/156854094X00116

Ng P.K.L., Safaie M. & Naser M.D. 2012. A new species of Raphidopus Stimpson, 1858, from the Persian Gulf (Crustacea: Decapoda: Anomura: Porcellanidae). Zootaxa 3402 (1): 54–60. https://doi.org/10.11646/zootaxa.3402.1.4

Nguyen L.-T., Schmidt H.A., von Haeseler A. & Minh B.Q. 2015. IQ-TREE: A fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies. Molecular Biology and Evolution 32 (1): 268–274. https://doi.org/10.1093/molbev/msu300

Osawa M. & Chan T.-Y. 2010. Part III. Porcellanidae (Porcelain crabs). In: Chan T.-Y. (ed.) Crustacean Fauna of Taiwan: Crab-like Anomurans (Hippoidea, Lithodoidea and Porcellanidae): 67–181. National Taiwan Ocean University Press, Keelung.

Osawa M. & Ng P.K.L. 2018. A new species of the genus Raphidopus Stimpson, 1858 (Crustacea: Decapoda: Anomura: Porcellanidae) from Peninsular Malaysia, with additional records of R. johnsoni Ng & Nakasone, 1994 from Southeast Asia, and a key to species in the genus. Zootaxa 4433 (1): 111–126. https://doi.org/10.11646/zootaxa.4433.1.6

Rodríguez-Flores P.C., Machordom A., Abelló P., Cuesta J.A. & Macpherson E. 2019. Species delimitation and multi-locus species tree solve an old taxonomic problem for European squat lobsters of the genus Munida Leach, 1820. Marine Biodiversity 49: 1751–1773. https://doi.org/10.1007/s12526-019-00941-3

Ronquist F., Teslenko M., van der Mark P., Ayres D.L., Darling A., Hohna S., Larget B., Liu L., Suchard M.A. & Huelsenbeck J.P. 2012. MrBayes 3.2: Efficient Bayesian phylogenetic inference and model choice across a large model space. Systematic Biology 61: 539–542. https://doi.org/10.1093/sysbio/sys029

Rozas J., Ferrer-Mata A., Sánchez-DelBarrio J.C., Guirao-Rico S., Librado P., Ramos-Onsins S.E. & Sánchez-Gracia A. 2017. DnaSP 6: DNA sequence polymorphism analysis of large data sets. Molecular Biology and Evolution 34 (12): 3299–3302. https://doi.org/10.1093/molbev/msx248

Schwarz G. 1978. Estimating the dimension of a model. The Annals of Statistics 6 (2): 461–464. https://doi.org/10.1214/aos/1176344136

Shih H.-T., Liu M.-Y., Aoki M. & Suzuki H. 2022. Phylogeography of the fiddler crab Tubuca arcuata (Crustacea: Brachyura: Ocypodidae) in East Asia and Northern Vietnam. Zoological Studies 61: e68. https://doi.org/10.6620/ZS.2022.61-68

Stimpson W. 1858. Prodromus descriptionis animalium evertebratorum, quae in expeditione ad oceanum pacificum septentrionalem, a republica federata missa, Cadwaladaro Ringgold et Johanne Rodgers ducibus, observavit et descripsit. Pars VII. Crustacea Anomura. Proceedings of the Academy of Natural Sciences of Philadelphia 10: 225–252. https://doi.org/10.5962/bhl.title.51447

Stimpson W. 1907. Report on the Crustacea (Brachyura and Anomura) collected by the North Pacific Exploring Expedition, 1853–1856. Smithsonian Miscellaneous Collections 49: 1–240. https://doi.org/10.5962/bhl.title.51448

Tirmizi N.M. & Ghani N. 1994. An Indian Ocean record for a porcellanid crab, Raphidopus ciliatus Stimpson, 1858. Pakistan Journal of Marine Sciences 3: 69–72.

Wang X., Kong L., Chen J., Matsukuma A. & Li Q. 2017. Phylogeography of bivalve Meretrix petechialis in the Northwestern Pacific indicated by mitochondrial and nuclear DNA data. PLoS ONE 12 (8): e0183221. https://doi.org/10.1371/journal.pone.0183221

Xu J., Chan T.-Y., Tsang L.M. & Chu K.H. 2009. Phylogeography of the mitten crab Eriocheir sensu stricto in East Asia: Pleistocene isolation, population expansion and secondary contact. Molecular Phylogenetics and Evolution 52 (1): 45–56. https://doi.org/10.1016/j.ympev.2009.02.007

Yang S. & Sun X. 1990. On the porcellanid crabs from the coast of Fujian Province, China. Memoirs of Beijing Natural History Museum 45: 1–15. [In Chinese.]

Yang S. & Sun X. 1992. On the porcellanid crab (Anomura: Porcellanidae) of Guangxi Province, China. Transactions of the Chinese Crustacean Society 3: 196–213. [In Chinese.]

Yang S. & Sun X. 2005. The Porcellanidae (Crustacea: Anomura) of Hainan Island, China with description of a new species. Natural Sciences and Museums 1 (1): 1–30.

Zhang D., Gao F., Jakovlić I., Zou H., Zhang J., Li W.X. & Wang G.T. 2020. PhyloSuite: An integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. Molecular Ecology Resources 20 (1): 348–355. https://doi.org/10.1111/1755-0998.13096

Published
2026-04-09
How to Cite
Wang, B., Wan, Y., Fang, X., Qiu, J.-W., & Dong, D. (2026). Integrative taxonomy reveals a new cryptic species of Raphidopus Stimpson, 1858 (Decapoda, Anomura, Porcellanidae) from the Yellow Sea and East China Sea. European Journal of Taxonomy, 1048(1), 202–222. https://doi.org/10.5852/ejt.2026.1048.3247
Section
Research article