Crossing the Divide: Admixture Across the Antarctic Polar Front Revealed by the Brittle Star Astrotoma agassizii.
Although marine systems are often thought of as "open" to dispersal, strong oceanic barriers can exist, isolating populations over time and potentially leading to speciation (Clarke et al., 2005; Thornhill et al., 2008; Figuerola et al., 2017). One of the strongest open ocean barriers in the world is the Antarctic Polar Front (APF), which isolates the Southern Ocean from warmer waters at lower latitudes and thus contributes to the high endemism found in the Southern Ocean (Thornhill et al., 2008; Kaiser et al., 2013). However, the APF co-occurs with the Antarctic Circumpolar Current (ACC), which functions as an oceanographic dispersal mechanism for many species in and around the Southern Ocean (Bathmann et al., 1997; Smetacek et al., 1997). Megafauna such as whales, fur seals, and marine birds freely move across the APF (Rasmussen et al., 2007); but, in contrast, endemism is particularly high among several marine invertebrate groups inhabiting continental shelves on either side of the APF despite having long life-stages capable of dispersal (Ekman, 1953; Hempel, 1985; Arntz et al. 1997; Thatje, 2012). For example, molecular studies analyzing genetic connectivity across the APF have revealed distinct genetic breaks on either side of the APF in nemertean worms (Thornhill et al., 2008), octocorals (Duenas et al., 2016), and notothenioid fish (Bargelloni et al., 2000). Although one study suggested that migration occurs across the APF in molluscs on the basis of taxonomy (Jorger et al., 2014), supporting molecular data are absent, and these animals occurred at abyssal, not shelf, depths. Another group for which species are reported to occur on both sides of the ACC and APF is the Ophiuroidea, a dominant component of Southern Ocean benthic fauna (Stohr et al., 2012). For example, molecular work within the brittle star species Ophiura lymani identified successful radiations out of the Southern Ocean into South America, albeit only during the Pleistocene (Sands et al., 2015). Presently, genetic connectivity has not been recognized across the APF among extant ophiuroids.
In contrast to the APF, the ACC is often considered to be a large-scale dispersal vector (Nikula et al., 2010), moving clockwise around Antarctica and coming into contact with the southernmost region of South America. Pelagic larvae, such as lecithotrophic larvae produced by the brittle star Astrotoma agassizii Lyman, 1875, have been recovered from the Ross Sea with mitochondrial haplotypes matching those from the Antarctic Peninsula, presumably via dispersal by the ACC (Heimeier et al., 2010). Additionally, the isopod species Septemserolis septemcarinata, which has no pelagic stages, can apparently disperse over a distance of 2000 km, likely through rafting on kelp mediated by the ACC (Leese et al., 2010). Thus, if a species' life history incorporates a planktonic dispersal phase, migration to the Patagonian Shelf of South America, some ~700 km from the Antarctic shelf, is possible given the Coriolis effect and Eckman transport (Price et al., 1988). However, such dispersal events across the APF would require that a species withstand substantial temperature and salinity changes. Previous trans-Drake Passage work on A. agassizii using mitochondrial DNA (mtDNA) identified a single clade on the shelf regions of the Southern Ocean and two clades on the South American shelf, with no evidence for genetic connectivity across the APF (Hunter and Halanych, 2008). However, geographic sampling in the Southern Ocean has previously been limited primarily to the Antarctic Peninsula, and genetic analyses relied solely on mtDNA, which is uniparentally inherited and not suitable for exploring potential admixture. Morphologically designated as a single species on either side of the Drake Passage, A. agassizii is considered a brooder in its geographic ranges of South America but has recently been revealed to possess planktonic lecithotrophic larvae in the Southern Ocean (Heimeier et al., 2010). Whether these reproductive strategies are unique to either region is unknown, but this difference could imply that A. agassizii is composed of different species.
Here, we address the question of genetic connectivity in the brittle star A. agassizii (Fig. 1), which has a broad geographic distribution, by examining populations from both the Western Antarctic and the South American continental shelves. Specifically, we sampled a broader geographic range as well as a greater number of individuals than Hunter and Halanych (2008), using both mtDNA and higher-resolution genomic single-nucleotide polymorphism (SNP) markers with the 2b-RAD approach (Wang et al., 2012), a restriction-site-associated DNA (RAD) genotyping method. A larger geographic range was included in this study for the Southern Ocean to facilitate investigation of spatial genetic structure within A. agassizii's Southern Ocean circumpolar distribution. Similar 2b-RAD work on the circumpolar ophiuroid Ophionotus victoriae revealed four distinct populations that were geographically structured and may represent multiple species (Galaska et al., 2017b). This was contrary to the prediction of an intermixed range due to the dispersal capabilities of O. victoriae's, feeding planktotrophic larvae. In this study, two hypotheses were tested: (1) Southern Ocean and South American lineages of A. agassizii are genetically isolated, representing distinct ecological and evolutionary units, and (2) significant genetic structure by geography would be recovered in the Southern Ocean, analogous to what was recently identified in O. victoriae.
Materials and Methods
Individuals of Astrotoma agassizii were collected during four National Science Foundation-sponsored research expeditions (i.e., RVIB Nathaniel B. Palmer 12-10, RV Laurence M. Gould 04-14, 06-05, and 13-12), the Polarstern expedition PS77, and four British Antarctic Survey-sponsored expeditions (i.e., JR144, JR179, JR230, and JR275). In total, the data set included 231 individuals collected from the Ross Sea to the Weddell Sea in the Southern Ocean and the Patagonian Shelf off the southeastern coast of South America (Fig. 2a; Table S1, available online).
Sample preparation and sequencing
Genomic DNA was extracted using a DNeasy Blood and Tissue Kit (Qiagen, Hilden, Germany) following the manufacturer's protocol, and fragments from three mtDNA genes (i.e., cytochrome c oxidase subunits I [COI] and II [COII] and the large ribosomal subunit 16S-rDNA) were amplified via polymerase chain reaction. Samples from 45 individuals that were provided by and analyzed at the British Antarctic Survey were amplified for an ~660-bp fragment of COI with the primers LCO1490 (5'-GGTCAACAAATCATAAAGATATTGG-3') and HCO2198 (5'-TAAACTTCAGGGTGACCAAAAAATCA-3') (Folmer et al., 1994) under the following thermocycling conditions: initial denaturation at 94 [degrees]C for 3 min, 40 cycles of denaturation at 94 [degrees]C for 30 s, annealing at 51 [degrees]C for 1 min, extension at 72 [degrees]C for 1 min; and final extension at 72 [degrees]C for 2 min. Samples obtained by the Halanych Laboratory at Auburn University from an additional 186 individuals were amplified and sequenced for fragments of the COII and 16S-rDNA mtDNA genes to allow comparison to the work done by Hunter and Halanych (2008). The COII primer set C02_23AF (5'-MCARCTWGGWTTWCAAGA-3') and C02_577R (5'-TCSGARCATTGSCCATARAA-3') (Hunter and Halanych, 2008) was utilized to amplify an ~550-bp fragment from the same 186 individuals for which 16S-rDNA was amplified (see below; Fig. 2; Table S1, available online). Thermo-cycling conditions utilized for COII were as follows: initial denaturation at 94 [degrees]C for 3 min; 35 cycles of denaturation at 94 [degrees]C for 30 s, annealing at 50 [degrees]C for 30 s, and extension at 72 [degrees]C for 30 s; and final extension at 72 [degrees]C for 3 min. An ~500-bp fragment of 16S-rDNA was amplified using the primers 16SarL (5'-CGCCTGTTTATCAAAAACAT-3') and 16SbrH (5'-CCGGTCTGAACTCAGATCACGT-3') (Palumbi, 2007) under the following thermocycling conditions: initial denaturation at 94 [degrees]C for 3 min, 35 cycles of denaturation at 94 [degrees]C for 30 s, annealing at 46 [degrees]C for 30 s, extension at 72 [degrees]C for 30 s, and final extension at 72 [degrees]C for 3 min. Amplicons from COII and 16S-rDNA were sent to Genewiz (South Plainfield, NJ) for bidirectional Sanger sequencing.
Population genetic analyses
Assembly and editing of bidirectional Sanger sequences were done with Sequencher software (ver. 5.4; Gene Codes, Ann Arbor, MI), and MEGA software (ver. 6; Tamura et al., 2013) was used to perform alignments via MUSCLE software (Edgar, 2004) for each mtDNA gene. Network analyses using the TCS program were done with POPART software (ver. 1.7; Clement et al., 2000; Leigh and Bryant, 2015) to visualize relationships between mtDNA haplotypes of A. agassizii recovered from COI, COII, and 16S-rDNA separately, along with a concatenation of 16S-rDNA and COII for all individuals that were sequenced for both (Fig. 3). DnaSP software (ver. 5.10.01; Librado and Rozas, 2009) was used to perform tests of neutrality, including Tajima's D (Tajima, 1989) and Fu and Li's [F.sub.s] (Fu and Li, 1993), along with standard nucleotide indices from each of the three mtDN A fragments. Uncorrected pairwise distances (p-distances) among the COI, COII, and 16S-rDNA fragments were generated separately in PAUP* software (ver. 4.0b10; Swofford, 2003).
RAD-based SNP data collection
From the 231 individuals included in this study, a subset of 94 individuals were haphazardly selected for whole-genome SNP-based analyses following Wang et al.'s (2012) 2b-RAD protocol. These 94 individuals represented localities from the entire geographic range where both COII and 16S-rDNA were also sampled. The 2b-RAD protocol utilized RNAse-treated genomic DNA that was cut with the restriction enzyme Alf I, which leaves a 2-bp sticky end on both sides of the cleaved DNA. A one-sixteenth reduction scheme was employed through the addition of site-specific ligation adaptors (specifically, NG/NG) that paired with their complementary 2-bp sticky ends. Samples were then dual barcoded and sent for sequencing to the Hudson Alpha Institute for Biotechnology Genome Services Laboratory (Huntsville, AL) on an Illumina Hi-Seq 2500 system (Illumina, San Diego, CA) using v4 chemistry, generating 50-bp single-end reads.
Raw Illumina reads were demultiplexed by sample, quality filtered, and aligned against a custom-derived reference built de novo from our sequences, as outlined in Wang et al. (2012), using scripts from Meyer (2017) and Stacks (ver. 1.35) denovo_map.pl (Catchen et al., 2011). The 2b-RAD data were first filtered to exclude loci with less than 25 x coverage within samples. Homozygous SNP loci were then defined to have a maximum variance of 1%, whereas those considered heterozygous had a minimum variance of 25%. Any loci that did not meet these criteria were excluded from further analyses. Finally, only loci occurring in [greater than or equal to]75% of individuals within a sampling locality were retained.
Multiple analyses were conducted on the SNP data set to determine genetic diversity and structure within and between geographic populations and genetic lineages of A. agassizii. Initially, SNP data were analyzed using discriminant analysis of principal components (DAPC) from the adegenet package (ver. 1.4-2; Jombart, 2008; Jombart et al., 2010; Jombart and Ahmed, 2011) in the R statistical environment (ver. 3.3.2; R Core Team, 2016). Specifically, adegenet initially conducts a series of principal component analyses (PCAs) on SNP data that is then retained to perform a discriminant analysis on all PCAs (DAPC). Performing multiple PCAs allows for identification of genetic clusters while avoiding assumptions of population genetic models (Jombart et al., 2010). The retention of multiple PCAs can then be analyzed by DAPC for group variability while avoiding within-group variation (Jombart et al., 2010). Optimal clusters (K), likely representing discrete populations, were identified through Bayesian information criterion likelihood values from retained principle components (Fig. A1). Visualization of DAPCs was performed with adegenet in R.
In addition, the LEA (landscape and ecological associations) package (ver. 1.0) in R was used to perform population structure inference and admixture coefficient analyses (Frichot and Francois, 2015). Estimation of K in LEA is performed using the cross-entropy criterion (Fig. A2), and least squares estimates were used to calculate ancestry proportions (Frichot et al., 2014). Admixture was then visualized in two ways: (1) as bar charts, similar to those from STRUCTURE software (see below), and (2) as pie charts, with the inclusion of geographic coordinates to visualize admixture at each locality, which were overlain onto an orthographic projection map of Antarctica and the Patagonian Shelf with the R package ggplot2 (ver. 2.2.1; Wickham, 2009).
Further analyses of SNP data were performed using STRUCTURE (ver. 2.3.4; Pritchard et al., 2000) under the following parameters: (1) five replicates at each potential K (1-18), (2) an admixture model with correlated allele frequencies, (3) a 100,000-generation burn-in period, and (4) 100,000 additional Markov chain Monte Carlo generations. These analyses were run on Southern Ocean and South American populations together as well as for each region separately. Files containing each simulation were then processed with STRUCTURE HARVESTER (ver. 0.6.94; Earl and Von-Holdt, 2012) to objectively select a value for K on the basis of [DELTA]K analyses. The selected K for each analysis was visualized using CLUMPP software (ver. 1.1.2; Jakobsson and Rosenberg, 2007) as well as DISTRUCT software (ver. 1.1; Rosenberg, 2004).
Last, summary statistics for SNP data along with analyses of genetic differentiation were performed in the R package HIERFSTAT (ver. 0.04-22; Goudet, 2005). Initially, SNP data were analyzed assuming a single population to recover summary statistics. However, once discrete populations were identified from the DAPC, LEA, and STRUCTURE analyses, additional summary statistics were performed on each. Pair-wise [F.sub.ST] differences were calculated using GenoDive software (ver. 2.0b27; Meirmans and Van Tienderen, 2004) to test for significance between the Southern Ocean and South American lineages.
Sequence data for mtDNA COII and 16S-rDNA were analyzed both separately and concatenated for 186 individuals (data set A) with an additional 45 individuals analyzed solely for COI (data set B), and all three mtDNA fragments revealed genetic structure between the Southern Ocean and South America. The TCS-based haplotype network of Astrotoma agassizii inferred from COII and 16S-rDNA identified one clade in the Southern Ocean (clade I) and two distinct clades in South America (clades II and III) (Fig. 3a). Although the two South American clades are presented as a single network to show the relationship between them, they separate into distinct networks if a 95% connection limit is applied (data not shown). Notably, an individual with both COII and 16S-rDNA haplotypes thought to be unique to South America was recovered on the Antarctic Peninsula in the Southern Ocean. Histograms of uncorrected p-distance values (Fig. 3) revealed two distinct modes in the COII and 16S-rDNA concatenated data set, representing within-clade (0.2%-1.0%) and between-clade (3.8%-6.2%) genetic distances. Similar network results were recovered from 45 individuals analyzed for only COI (Fig. 3b), although inferences made from the COI data set are limited because there are fewer samples. Two similar modes for COI uncorrected p-distances were recovered for within (0.2%-0.8%) and between (5.8%-7.0%) clades.
Tests of neutrality were found to be not significant for either Tajima's D or Fu and Li's [F.sub.s] for any of the three mtDNA fragments when data sets included all samples, which could be the result of differentiation between populations. Thus, additional tests of neutrality were performed individually on clades identified from network analyses (Fig. 3) for the COII fragment, since it consisted of the same number of individuals as 16S-rDNA but possessed higher nucleotide diversity. In this case, Tajima's D and Fu and Li's [F.sub.s] were found to be statistically significant (P < 0.05) and negative for clade I, with values of -2.217 and -3.89, respectively. Tests of neutrality in clade II were all found to be nonsignificant, while clade III was found to have a statistically significant and negative value for Fu and Li's [F.sub.s] (-2.751; P < 0.05). Thus, these negatively significant tests of neutrality within clades I and III suggest either recent population expansions or purifying selection operating on COII, which are fairly typical results from mitochondrial data (Wares, 2010). Amplified fragments of COI, COII, and 16S-rDNA recovered 76, 74, and 30 segregating sites, respectively, and summary nucleotide indices by fragment are presented in Table 1.
Quality filtering of SNP loci yielded a data set of 955 polymorphic SNP loci among 94 individuals from the COII and 16S-rDNA data sets, with 33 and 61 from the South America and Southern Ocean sampling localities, respectively (including the individual from the Southern Ocean that was recovered with a South American mtDNA haplotype). For the entire data set, the highest supported K for both DAPC and LEA was K = 5 (Figs. A1, A2), with two [K.sub.S] each in South America and the Southern Ocean and a fifth K composed of five individuals from the two geographic regions (i.e., 4 from South America and 1 from the Southern Ocean; Figs. 2b, 4). Similar patterns were obtained when each region was analyzed individually (data not shown). As STRUCTURE has hierarchal model assumptions that are not always met (Jombart et al., 2010; Kalinowski, 2011), the results, though similar, are presented in Figures A3-A5 for comparison. Although estimates for the number of discrete populations, as represented by K, were consistent between analyses, the true value likely resides somewhere within the range 2-5. Hereafter, the discussion of results assumes K = 5, given the above. Genetic distances between populations as defined by mitochondrial clade are presented in Table 2 and revealed significant (P < 0.001) differentiation between the three (i.e., SOI, SAII, and SAIII). Summary estimates of genetic diversity recovered from the entire SNP data matrix are presented in Table 3. Fixed differences between clusters identified by DAPC are presented in Table 4. Analyses of the Southern Ocean and South American data as a whole also yielded significant results ([F.sub.ST] = 0.721, P < 0.001), supporting our first hypothesis that the two regions are genetically isolated. However, the second hypothesis of geographic structure in the Southern Ocean was found to be not significant ([F.sub.ST] = 0.002, P = 0.72) from DAPC and LEA analyses.
Notably, five individuals were identified apparently resulting from admixture, or genetic mixing, between populations in South America and the Southern Ocean, including one individual from the Southern Ocean possessing a South American mtDNA haplotype. These admixed individuals were recovered in the above analyses (in Fig. 2b, burgundy bars; in Fig. 4, cluster 3) and identified as such under all values of K [greater than or equal to] 2 (Figs. A3, A5, A6). Admixture was also recovered from six individuals between the two South American populations (Fig. 2b, bars with pink and yellow). These individuals were also distinguishable when SNP calls were manually scanned, because loci that were fixed in either South America or Southern Ocean populations were heterozygous in admixed individuals (note that admixed individuals may be [F.sub.2], [F.sub.3], or later generations, and thus not all admixed loci are heterozygous). Additionally, no unique alleles were detected in these apparently admixed individuals.
Admixture across the APF
Using a suite of 955 polymorphic SNP loci for Astrotoma agassizii, we found evidence of admixture across the Drake Passage that separates the South American and Southern Ocean regions (Fig. 2b). Nonetheless, the South American and Southern Ocean lineages previously identified by Hunter and Halanych (2008) are confirmed to be strongly divergent populations ([F.sub.ST] = 0.721, P < 0.001). Whereas analyses presented here and by others (Hunter and Halanych, 2008; Leese et al., 2008; Thornhill et al., 2008) do reveal significant genetic differentiation between populations in South America and the Southern Ocean, SNP data allowed identification of admixed individuals implying recent, or even current, gene flow occurring bidirectionally across the strong barrier imposed by the APF. Moreover, we support earlier findings (e.g., Hunter and Halanych, 2008) of two clades in South America with SNP-based analyses ([F.sub.ST] = 0.363, P < 0.001), with admixture between them revealed in six individuals (Fig. 2b). For the Southern Ocean, SNP data also imply some geographic structure, particularly in the Ross Sea. Notably, the variable genetic structure of A. agassizii across the Southern Ocean contrasts with that of Ophionotus victoriae, which possesses population structure reflecting specific geographic regions (Galaska et al., 2017b). In comparison, although both A. agassizii and O. victoriae in the Southern Ocean have been previously reported to have circumpolar distributions and employ broadcast spawning with planktonic larval life-history stages, A. agassizii appears to have higher dispersal capabilities relative to O. victoriae.
With the unexpected findings of admixture across the APF, important questions arise, including just how permeable the APF is to dispersal of benthic invertebrates. Of course, the rate at which gene flow occurs is likely taxa dependent, and our limited sampling serves as just a coarse estimate at best. Even under these limitations, notable patterns are apparent. For instance, 12.1% of South American individuals sampled for 2b-RAD were apparently admixed between the two regions, compared with 1.6% from the Southern Ocean. That admixed individuals had a higher frequency in South America suggests that, in A. agassizii, migration is more probable from the Southern Ocean to South America. In recent evolutionary history, dispersal from the Southern Ocean to South America has also been identified in the ophiuroid species Ophiura lymani (Sands et al., 2015). Alternatively, survivorship of admixed individuals could be more favorable in South America. Given that many benthic invertebrates in the Southern Ocean possess reproductive strategies involving a pelagic larval stage (Stanwell-Smith et al., 1999) along with the dispersal potential of the ACC, the use of fine-scale population genetic techniques is likely to uncover a higher number of taxa having trans-APF connectivity.
Data presented here imply that A. agassizii individuals (most likely larvae) have an ability to migrate long distances (i.e., >900 km) as well as overcome the 3-4 [degrees]C temperature cline at the APF between the Southern Ocean and South America. Genetic connectivity by teleplanic larvae is plausible through transport by mesoscale eddies generated by the ACC (Joyce et al., 1981; Johnson and Bryden, 1989; Clarke et al., 2005). Although such connectivity may occur in both northerly and southerly directions, given that the Antarctic Peninsula is experiencing unprecedentedly rapid warming due to climate change, higher-temperature waters have been suggested to mitigate migration of cold temperature-limited species (Aronson et al., 2007, 2009; Clarke et al., 2007). Additionally, warming temperatures along the Antarctic Peninsula could increase the survivability of individuals from northern latitudes on the Antarctic continental shelf (Meredith and King, 2005). Given this, one possible driver for the higher rate of admixture found in South America is that the temperature and salinity in more northerly latitudes may be increasingly favorable to A. agassizii's reproduction, as they have been implicated as important cues in other echinoderms (Lamare and Stewart, 1998). Migration of species or populations from South America could have played a crucial role in the Antarctic shelf undergoing recolonization after the post-glacial maximum (Aronson et al., 2007; Thatje, 2012).
Given that the Southern Ocean population of A. agassizii appears to be primarily reproducing via lecithotrophic larvae and that the South American population is described as brooding, recovering five individuals resulting from apparent admixture between them is surprising. Although we have conservatively considered the two regions to be distinctly diverged populations due to large genetic differentiation between the Southern Ocean and South America ([F.sub.ST] = 0.721, P < 0.001), we recognize that A. agassizii may represent multiple species. This conclusion is supported by apparent reproductive differences and large genetic differences, with almost a third of the SNP loci fixed between regions (Table 4). However, morphological support for separate species is lacking.
Given that the Southern Ocean A. agassizii possess a pelagic larval stage, detection of more admixture on the Patagonian Shelf, although by limited sampling, would support the idea that migration from the Southern Ocean to South America is more common than the converse. However, explaining the introgression of the individual with the South American haplotype sampled from Antarctica is more difficult. For other animals, passive transport by rafting on substrate such as soft coral or macroalgae has been suggested (Leese et al., 2010; Thatje, 2012) and documented (Helmuth et al., 1994) in benthic invertebrates around the Southern Ocean. If South American A. agassizii do have a planktonic lecithotrophic larval stage, transport into the Southern Ocean via currents or mesoscale eddies may be possible. With the apparent higher rate of admixture found on the Patagonian Shelf of South America, this area and the western Chilean side of southern South America are areas of high interest for future research. If a first-generation migrant is going to be recovered from the Southern Ocean in South America, we hypothesize that the Chilean side of South America would be an ideal location to sample, as it is where the Humboldt Current breaks north from the ACC and comes into contact with the South American continent (White and Peterson, 1996). With the warming climate in the Southern Ocean, specifically around the Antarctic Peninsula (Meredith and King, 2005), the APF's ability to serve as an absolute barrier for many species could account for genetic isolation; but additional assessment of trans-APF species with high-resolution molecular techniques will likely yield more cases of connectivity.
We thank the National Science Foundation (NSF ANT-1043670 to ARM. NSF ANT-1043745 and OPP-0132032 to KMH) and the British Antarctic Survey for the funding to collect the specimens and perform the research. This research was made possible with assistance from the captains and crews of NBP12-10, LMG13-12, LMG04-14, LMG06-05, PS77, JR144, JR179, and JR230. We also thank Dr. Stephen Sefick for useful suggestions with ggplot2 in R. This is Molette Biology Laboratory contribution 65 and Auburn University Marine Biology Program contribution 159.
All sequences collected herein are reported under GenBank accession numbers KY986584-KY986640 (Fig. 2; Table S2, available online). Raw reads for 2b-RAD SNP data are deposited in the Sequence Read Archive (SAMN07237772-SAMN07237865). Data matrices and alignments are deposited in Dryad (see Galaska et al., 2017a).
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MATTHEW P. GALASKA (1,*), CHESTER J. SANDS (2), SCOTT R. SANTOS (1), ANDREW R. MAHON (3), AND KENNETH M. HALANYCH (1,*)
(1) Molette Biology Laboratory for Environmental and Climate Change Studies, Department of Biological Sciences, Auburn University, 101 Rouse Life Sciences Building, Auburn, Alabama 36849; (2) British Antarctic Survey, Natural Environment Research Council, Cambridge CB3 OET, United Kingdom; and (3) Department of Biology, Central Michigan University, Mount Pleasant, Michigan 48859
Received 28 March 2017; Accepted 5 June 2017; Published online 1 September 2017.
(*) To whom correspondence should be addressed. E-mail: email@example.com; firstname.lastname@example.org.
Abbreviations: ACC, Antarctic Circumpolar Current; APF, Antarctic Polar Front; BIC, Bayesian information criterion; RAD, restriction-site-associated DNA; SNP, single-nucleotide polymorphism.
Table 1 Nucleotide indices from all three mtDNA fragments 16S-rDNA COI COII Nucleotide diversity ([pi]) 0.018 0.038 0.032 No. of segregating sites 30 76 74 No. of parsimony-informative sites 22 60 53 Tajima's D statistic 1.154 0.925 0.102 (P > 0.10) (P > 0.10) (P > 0.10) Fu and Li's [F.sub.s] -0.366 0.294 -1.475 (P > 0.10) (P > 0.10) (P > 0.10) Hd 0.772 0.946 0.937 (SD, 0.001) (SD, 0.000) (SD, 0.009) Table 2 Pairwise [F.sub.ST] genetic distances for the single-nucleotide polymorphism data set between the three mtDNA eludes (roman numerals are as in Fig. 3) recovered from both Hunter and Halanych (2008) and mtDNA analyses presented here SOI SAII SAIII SOI ... SAII 0.799 ... SAIII 0.711 0.363 ... All [F.sub.ST] values recovered have P < 0.001. SA, South America; SO, Southern Ocean. Table 3 Summary statistics for the 955 single-nucleotide polymorphism loci, inferred from the clusters identified by discriminant analyses of principal components as well as the complete data set Region (cluster) n [H.sub.O] [H.sub.E] [H.sub.S] [H.sub.T] SA(1) 19 0.097 0.093 0.0867 0.094 SA(2) 10 0.106 0.085 0.095 0.096 Admixed (3) 5 0.067 0.056 0.067 0.065 SO (4) 27 0.155 0.158 0.161 0.157 SO (5) 33 0.158 0.159 0.160 0.164 SA and SO 94 0.136 0.373 0.122 0.372 Region (cluster) [D.sub.ST] [H.sub.TP] [F.sub.ST] [F.sub.STP] SA(1) 0.007 0.098 0.074 0.111 SA(2) 0.001 0.095 0.006 0.013 Admixed (3) -0.002 0.063 -0.035 -0.048 SO (4) -0.003 0.157 -0.020 -0.024 SO (5) 0.004 0.167 0.025 0.038 SA and SO 0.250 0.438 0.671 0.721 Region (cluster) [F.sub.IS] SA(1) -0.130 SA(2) -0.123 Admixed (3) -0.004 SO (4) 0.068 SO (5) 0.026 SA and SO 0.027 Statistics are as follows: number of individuals (n), observed heterozygosity ([H.sub.O]), expected heterozygosity ([H.sub.E]), mean gene diversity within a population ([H.sub.S]), overall gene diversity ([H.sub.T]), gene diversity among samples ([D.sub.ST]), corrected gene diversity ([H.sub.TP]), global population differentiation ([F.sub.ST]), corrected population differentiation ([F.sub.STP]), and inbreeding coefficient ([F.sub.IS]). Numbers in parentheses represent cluster numbers presented in Figure 4. SA, South America; SO, Southern Ocean. Table 4 Number of fixed single-nucleotide polymorphism loci between the five clusters inferred from discriminant analyses of principal components SA (1) SA (2) SO (4) SO (5) SA (1) ... SA (2) 1 ... SO (4) 287 292 ... SO (5) 295 300 0 ... Heterozygous 233 217 452 425 Loei had to be 100% fixed for opposite alleles within the two compared populations to be counted. The final row is the number of loci coded for both alleles within a population. Numbers in parentheses represent cluster numbers presented in Figure 4. SA. South America; SO, Southern Ocean.
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|Author:||Galaska, Matthew P.; Sands, Chester J.; Santos, Scott R.; Mahon, Andrew R.; Halanych, Kenneth M.|
|Publication:||The Biological Bulletin|
|Date:||Jun 1, 2017|
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