TY - JOUR
T1 - Population Genomics of New Zealand Pouched Lamprey (kanakana; piharau; Geotria australis)
AU - Miller, Allison K.
AU - Timoshevskaya, Nataliya
AU - Smith, Jeramiah J.
AU - Gillum, Joanne
AU - Sharif, Saeed
AU - Clarke, Shannon
AU - Baker, Cindy
AU - Kitson, Jane
AU - Gemmell, Neil J.
AU - Alexander, Alana
N1 - Publisher Copyright:
© 2022 The American Genetic Association.
PY - 2022/7/1
Y1 - 2022/7/1
N2 - Pouched lamprey (Geotria australis) or kanakana/piharau is a culturally and ecologically significant jawless fish that is distributed throughout Aotearoa New Zealand. Despite its importance, much remains unknown about historical relationships and gene flow between populations of this enigmatic species within New Zealand. To help inform management, we assembled a draft G. australis genome and completed the first comprehensive population genomics analysis of pouched lamprey within New Zealand using targeted gene sequencing (Cyt-b and COI) and restriction site-associated DNA sequencing (RADSeq) methods. Employing 16 000 genome-wide single nucleotide polymorphisms (SNPs) derived from RADSeq (n = 186) and sequence data from Cyt-b (766 bp, n = 94) and COI (589 bp, n = 20), we reveal low levels of structure across 10 sampling locations spanning the species range within New Zealand. F-statistics, outlier analyses, and STRUCTURE suggest a single panmictic population, and Mantel and EEMS tests reveal no significant isolation by distance. This implies either ongoing gene flow among populations or recent shared ancestry among New Zealand pouched lamprey. We can now use the information gained from these genetic tools to assist managers with monitoring effective population size, managing potential diseases, and conservation measures such as artificial propagation programs. We further demonstrate the general utility of these genetic tools for acquiring information about elusive species.
AB - Pouched lamprey (Geotria australis) or kanakana/piharau is a culturally and ecologically significant jawless fish that is distributed throughout Aotearoa New Zealand. Despite its importance, much remains unknown about historical relationships and gene flow between populations of this enigmatic species within New Zealand. To help inform management, we assembled a draft G. australis genome and completed the first comprehensive population genomics analysis of pouched lamprey within New Zealand using targeted gene sequencing (Cyt-b and COI) and restriction site-associated DNA sequencing (RADSeq) methods. Employing 16 000 genome-wide single nucleotide polymorphisms (SNPs) derived from RADSeq (n = 186) and sequence data from Cyt-b (766 bp, n = 94) and COI (589 bp, n = 20), we reveal low levels of structure across 10 sampling locations spanning the species range within New Zealand. F-statistics, outlier analyses, and STRUCTURE suggest a single panmictic population, and Mantel and EEMS tests reveal no significant isolation by distance. This implies either ongoing gene flow among populations or recent shared ancestry among New Zealand pouched lamprey. We can now use the information gained from these genetic tools to assist managers with monitoring effective population size, managing potential diseases, and conservation measures such as artificial propagation programs. We further demonstrate the general utility of these genetic tools for acquiring information about elusive species.
KW - Southern Hemisphere lamprey
KW - conservation genetics
KW - effective population size
KW - gene flow
KW - genome
KW - historical demography
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U2 - 10.1093/jhered/esac014
DO - 10.1093/jhered/esac014
M3 - Article
C2 - 35439308
AN - SCOPUS:85135202757
SN - 0022-1503
VL - 113
SP - 380
EP - 397
JO - Journal of Heredity
JF - Journal of Heredity
IS - 4
ER -