Abstract
The American horseshoe crab (Limulus polyphemus) is an economically and ecologically important species, which is currently categorized as endangered in Mexico. L. polyphemus, one of four extant horseshoe crab species that constitute the class Merostomata, is distributed along the Atlantic coastline of the USA from Alabama to Maine and has another population on the coastline of Campeche, Yucatan, and Quintana Roo in the Yucatan Peninsula, Mexico. In the present study, we evaluated the genetic diversity and genetic structure of four separated localities along the coast of the Yucatan peninsula (Champoton, CH; Isla Arena, IA; Rio Lagartos, RL; and Holbox Island, HI), using nine microsatellite-type molecular markers for this species. The aim of this study is to obtain a baseline of the current level of genetic diversity, which would allow the monitoring of important changes over time. Multilocus analyses revealed moderate levels of genetic diversity (He, 0.5230 to 0.6389) and genetic structure within the whole study area (FST 0.025). The population from RL showed limited gene flows, differing significantly from the other sampling sites. The genetic information obtained in this study can support the implementation of management and conservation programs for this species in Mexico.
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References
Allendorf FW, Phelps SR (1981) Use of allelic frequencies to describe population structure. Can J Fish Aquat Sci 38:1507–1514
Athie G (2011) Yucatan current variability through the cozumel and yucatan channels. Cienc Mar 37:471–492. https://doi.org/10.7773/cm.v37i4A.1794
Belkhir K, Borsa P, Chikhi L, et al (2004a) GENETIX 4 04, logiciel sous Windows TM puer la génétique des populations
Belkhir K, Borsa P, Chikhi L, et al (2004b) GENETIX 4.04, logiciel sous Windows TM puer la génétique des populations
Benjamini Y, Yekutieli D (2001) The control of the false discovery rate in multiple testing under dependency. Ann Stat 29:1165–1188
Botton ML, Loveland RE (2003) Abundance and dispersal potential of horseshoe crab (Limulus polyphemus) larvae in the Delaware estuary. Estuaries 26:1472–1479. https://doi.org/10.1007/BF02803655
Botton ML, Ropes JW (1989) Feeding ecology of horseshoe crabs on the Continental Shelf, New Jersey to North Carolina. Bull Mar Sci 45:637–647
Brookfield JFY (1996) A simple new method for estimating null allele frequency from heterozygote deficiency. Mol Ecol 5:453–455
Du R, Ho B, Ling Ding J (2011) Application of cell-free hemolymph of horseshoe crab in antimicrobial drug screening. Curr Pharm Des 17:1234–1239. https://doi.org/10.2174/138161211795703717
Ehlinger GS, Tankersley RA (2009) Ecology of Horseshoe Crabs in Microtidal Lagoons. Biology and Conservation of Horseshoe Crabs. Springer, Boston, pp 149–162
Eldredge N, Stanley SM (1984) Living fossils. Springer Publishing, Berlin
Estes MG, Carmichael RH, Chen X, Carter SC (2021) Environmental factors and occurrence of horseshoe crabs in the northcentral Gulf of Mexico. PLoS ONE 16:e0243478. https://doi.org/10.1371/journal.pone.0243478
Excoffier LGL, Lischer HEL (2010) Arlequin suite ver 3.5: a new series of programs to perform population genetics analyses under linux and windows. Mol Ecol Resour 10:564–567. https://doi.org/10.1111/j.1755-0998.2010.02847.x
Excoffier LGL, Schneide S (2005) Arlequín ver.3.0: an integrated software package for multilocus genotype data: linked loci and correlated allele frequencies. Genetics 164:1567–1587
Fauvelot C, Planes S (2002) Understanding origins of present-day genetic structure in marine fish: biologically or historically driven patterns? Mar Biol 141:773–788. https://doi.org/10.1007/s00227-002-0869-7
Fischer M, Hock M, Paschke M (2003) Low genetic variation reduces cross-compatibility and offspring fitness in populations of a narrow endemic plant with a self-incompatibility system. Conserv Genet 4:325–336. https://doi.org/10.1023/A:1024051129024
Gómez S, Yánez A (1995) Evaluación estacional de las poblaciones de Limulus polyphemus L. en el norte de la Península de Yuctán (1994–1995). Rev Soc Mex Hist Nat 46:49–54
Jensen JL, Bohonak AJ, Kelley ST (2005) Isolation by distance, web service. BMC Genet 6:1–6. https://doi.org/10.1186/1471-2156-6-13
Kasinak J, Bartholomew K, Beekey M, Mattei J (2010) Movement Patterns and Population Genetics of the American Horseshoe Crab in Relation to Long Island Sound Conservation Strategies. Proceedings of the 2010 Biennial Long Island Sound Research Conference
Kin A, Błażejowski B (2014) The horseshoe crab of the genus limulus: living fossil or stabilomorph? PLoS ONE 9:e108036. https://doi.org/10.1371/journal.pone.0108036
King TL, Eackles MS (2004) Microsatellite DNA markers for the study of horseshoe crab (Limulus polyphemus) population structure. Mol Ecol Notes 4:394–396. https://doi.org/10.1111/j.1471-8286.2004.00663.x
King TL, Eackles MS, Spidle AP, Brockmann HJ (2005) Regional differentiation and sex-biased dispersal among populations of the horseshoe crab Limulus polyphemus. Trans Am Fish Soc 134:441–465. https://doi.org/10.1577/T04-023.1
King TL, Eackles MS, Aunins AW et al (2015) Conservation Genetics of the American Horseshoe Crab (Limulus polyphemus): Allelic Diversity, Zones of Genetic Discontinuity, and Regional Differentiation. Changing Global Perspectives on Horseshoe Crab Biology. Conservation and Management. Springer International Publishing, Cham, pp 65–96
Liew PL, Ng WL, Tan SG (2015) Levels and patterns of genetic variation in an Asian horseshoe crab species,a Tachypleus gigas Müller, from the malay peninsula. Mar Biol Res 11:879–886. https://doi.org/10.1080/17451000.2015.1024135
Maloney T, Phelan R, Simmons N (2018) Saving the horseshoe crab: a synthetic alternative to horseshoe crab blood for endotoxin detection. PLoS Biol 16:e2006607. https://doi.org/10.1371/journal.pbio.2006607
Meirmans PG, Hedrick PW (2011) Assessing population structure: FST and related measures. Mol Ecol Resour 11:5–18. https://doi.org/10.1111/j.1755-0998.2010.02927.x
Nei M (1978) Estimation of average hetorozygosity and genetic distance from a small number of individuals. Genetics 89:583–590
Nishida S, Koike H (2010) Isolation and characterization of compound microsatellite loci in the tri-spine horseshoe crab (Tachypleus tridentatus). Conserv Genet Resour 2:31–33. https://doi.org/10.1007/s12686-009-9153-1
Owings M, Chabot C, Watson W (2019) Effects of the biomedical bleeding process on the behavior of the American horseshoe crab, limulus POLYPHEMUS, in its natural habitat. Biol Bull 236:207–223. https://doi.org/10.1086/702917
Powell W, Morgante M, Andre C et al (1996) The comparison of RFLP, RAPD, AFLP and SSR (microsatellite) markers for germplasm analysis. Mol Breeding 2:225–238
Rosenberg MS, Anderson CD (2011) PASSaGE: pattern analysis, spatial statistics and geographic exegesis. version 2. Methods Ecol Evol 2:229–232. https://doi.org/10.1111/j.2041-210X.2010.00081.x
Rousset F (2008) Genepop’007: a complete reimplementation of the genepop software for windows and linux. Mol Ecol Resour 8:103–106
Rousset F, Leblois R (2007) Likelihood and approximate likelihood analyses of genetic structure in a linear habitat: performance and robustness to model mis-specification. Mol Biol Evol 24:2730–2745. https://doi.org/10.1093/molbev/msm206
Rudkin DM, Young GA, Nowlan GS (2008) The oldest horseshoe crab: a new xiphosurid from late ordovician Konservat-Lagerstätten deposits, Manitoba, Canada. Palaeontology 51:1–9. https://doi.org/10.1111/j.1475-4983.2007.00746.x
Rudloe A (1979) Locomotor and light responses of larvae of the horseshoe crab, Limulus polyphemus. Biol Bull 157:494–505. https://doi.org/10.2307/1541033
Rutecki D, Carmichael RH, Valiela I (2004) Magnitude of harvest of Atlantic horseshoe crabs, Limulus polyphemus, in Pleasant Bay, massachusetts. Estuaries 27:179–187. https://doi.org/10.1007/BF02803374
Sandoval-Gío JJ, Avilés-Ramírez G, Ortiz-León H et al (2020) Effects of the octopus fishery on the American horseshoe crab population in the Ría Lagartos biosphere reserve. Mexico Cienc Mar 46:77–88. https://doi.org/10.7773/cm.v46i2.2992
Schaller SY, Chabot CC, Watson WH (2010) Seasonal movements of American horseshoe crabs Limulus polyphemus in the great Bay Estuary, New Hampshire (USA). Curr Zool 56:587–598. https://doi.org/10.1093/czoolo/56.5.587
SEMARNAT (2010) Norma Oficial Mexicana NOM-059-SEMARNAT-2010, Protección ambiental– Especies nativas de México de flora y fauna silvestres– Categorías de riesgo y especificaciones para su inclusión, exclusión o cambio– Lista de especies en riesgo. Diario Oficial de la Federación 06 marzo, México
Shete S, Tiwari H, Elston RC (2000) On estimating the heterozygosity and polymorphism information content value. Theor Popul Biol 57:265–271
Shuster CN Jr (1982) A pictorial review of the natural history and ecology of the horseshoe crab Limulus polyphemus, with reference to other Limulidae. Prog Clin Biol Res 81:1–52
Slatkin M (1995) A measure of population subdivision based on microsatellite allele frequencies. Genetic 139(1):457–462
Slatkin M, Barton NH (1989) A comparison of three indirect methods for estimating average levels of gene flow. Evolution (n Y) 43:1349–1368. https://doi.org/10.1111/j.1558-5646.1989.tb02587.x
Smith DR, Brockmann HJ, Beekey MA et al (2017) Conservation status of the American horseshoe crab, (Limulus polyphemus): a regional assessment. Rev Fish Biol Fish 27:135–175. https://doi.org/10.1007/s11160-016-9461-y
Stephens PA, Sutherland WJ, Freckleton RP (1999) What is the Allee effect? Oikos 87:185. https://doi.org/10.2307/3547011
Swan BL (2005) Migrations of adult horseshoe crabs, limulus polyphemus, in the middle Atlantic bight: a 17-year tagging study. Estuaries 28:28–40. https://doi.org/10.1007/BF02732751
Tanacredi JT, Botton ML, Smith DR (2009) Biology and Conservation of Horseshoe Crabs. Springer, Boston
Tinker-Kulberg R, Dellinger K, Brady TE et al (2020) Horseshoe crab aquaculture as a sustainable endotoxin testing source. Front Mar Sci. https://doi.org/10.3389/fmars.2020.00153
van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P (2004) MICRO-CHECKERK: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes 4:535–538
Vasquez MC, Murillo A, Brockmann HJ, Julian D (2015) Multiple stressor interactions influence embryo development rate in the American horseshoe crab, Limulus polyphemus. J Exp Biol 2018:2355–2364. https://doi.org/10.1242/jeb.117184
Weir BS, Cockerham CC (1984) Estimating F-statistics for the analysis of population structure. Evolution (n Y) 38:1358–1370
Wright S (1978) Variability within and among natural populations Evolution and the Genetics of Populations. University of Chicago Press, Chicago
Zaldívar-Rae J, Sapién-Silva RE, Rosales-Raya M, Brockmann HJ (2009) American Horseshoe Crabs, Limulus polyphemus, in Mexico: Open Possibilities. Biology and Conservation of Horseshoe Crabs. Springer, Boston, pp 97–113
Zhao HW, Yang JX, Zhi QX et al (2013) Microsatellite and mitochondrial DNA analysis of the genetic structure of Chinese horseshoe crab (Tachypleus tridentatus) in southeast China coast. Afr J Biotechnol 12:2088–2099. https://doi.org/10.5897/AJB12.1912
Acknowledgements
This work was financially supported by CONACYT (PDCPN 2015-1097) and TecNM (Grant No. 10162.21-P). We thank Laura Margarita Marquez Valdelamar and Nelly María López Ortiz from the Biodiversity and Health Genomic Sequencing Laboratory of the Biology Institute of the National Autonomous University of Mexico, for their support to analyze the samples in the 3730xl DNA Analyzer sequencer.
Funding
This work was financially supported by TecNM (Grant No. 10162.21-P) and by CONACYT (Grant, DCPN 2015–1097).
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All authors have been personally and actively involved in substantial work leading to the paper and will take public responsibility for its content. Here, all co-authors agreed with the following the CRediT (Contributor Roles Taxonomy) author statement: ZBR and SGJJ contributed to conceptualization; ZBR, SGJJ, VHH, OLHJ, and ARGA contributed to methodology; ZBR and VHH contributed to validation; ZBR and VHH contributed to formal analysis; ZBR, VHH, and OLHJ contributed to investigation, ZBR contributed to resources; ZBR and VHH contributed to writing of the original draft; ZBR, SGJJ, and VHH contributed to writing, reviewing, and editing of the manuscript; VHH, OLHJ, and ARGA contributed to visualization; ZBR contributed to supervision, ZBR and SGJJ contributed to project administration and SGJJ contributed to funding acquisition.
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Zamora-Bustillos, R., Sandoval-Gío, J.J., Ortiz-León, H.J. et al. Microsatellite Loci of the Atlantic Horseshoe Crab (Limulus polyphemus) Reveal Inter-Localities Genetic Diversity in the Coastal Waters of the Eastern and Northern Yucatan Peninsula. Biochem Genet 61, 945–962 (2023). https://doi.org/10.1007/s10528-022-10292-7
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DOI: https://doi.org/10.1007/s10528-022-10292-7