Genetic diversity and population structure in four Cirsium (Asteraceae) species

The present study considers genetic diversity of 38 populations in 4 Cirsium species of the genus Cirsium Mill. (Asteraceae), occurring in different ecological regions and tries to compare degree of genetic variability among the species with wide geographical distribution versus endemic C. pyramidale showing confined geographical distribution. The results showed that the endemic species has similar value of genetic diversity parameters as the species with wider distribution. We also studied the possible admixture nature of these populations and tried to understand the relation between genetic changes, geographical distribution and polyploidy level and chromosome pairing in these species. ISSR analysis showed population difference in allele composition and frequency. Clustering and PcoA ordination produced different groupings in each species, while STRUCTURE and reticulation analyses revealed high degree of genetic admixture and gene exchange among populations as well as allelic rearrangement. No significant correlation was observed between geographical distance and genetic distance of the populations and AMOVA test revealed no significant difference among populations in each species studied. However, high amount of within population variation occurred in all 4 species indicating their cross-pollination nature and high genetic admixture. The populations also varied in chiasma frequency and chromosome pairing as well as the occurrence of heterozygote translocations all creating more variability to be used by plants for local adaptation.     

Genetic variation and population structure in Korean populations of sand dune speciesSalsola komarovi (Chenopodiaceae)

Salsola komarovi lljin is a herbaceous annual native to the sand dunes and beaches of Japan, northern China, Sakhalln and Korea. Starch-gel electrophoresis was conducted on leaves and stems collected from 300 plants in eight Korean populations. The mean number of alleles per locus (A _p=1.51), mean expected heterozygosity (He _p=0.116), and total genetic diversity (H _T=0.279) were comparable with those for species with similar life history and ecological traits. A general conformance of genotype frequencies to Hardy-Weinberg expectations (meanF _IS=−0.030) indicates thatS. komarovi is an outcrossing species. Slightly more than 20% of the genetic variation was found among populations (F _ST=0.204). In addition, significant differences in allele frequency were detected between populations at all 11 polymorphic loci (P<0.001). Nei's genetic identities range from 0.885 to 0.985 with a mean of 0.942. However, indirect estimates of the number of migrant per generation (0.97, calculated fromF _ST and 0.31, calculated from seven private alleles) indicate that the levels of gene flow is low among Korean populations. Although the species maintains a moderate level of genetic variation within populations, the small, isolated natural populations of the species have been severely destructed by human activities, particularly in summer season. If this is true, conservation efforts should be focused on those populations that currently maintain the most genetic diversity (e.g., populations of Cheju Island and coast of the southwestern Korean Peninsula).     

Genetic studies on the Asmat population (Irian-Jaya, Indonesia)

The Asmat are a population of about 35,000 people living on the South-West coast of Irian-Jaya (Indonesia; New Guinea). This paper presents the results of enzyme group and serum protein group typings in a sample of Asmats living in the coastal region around Agats. Red cell enzyme polymorphisms (EaP, PGM1, 6-PGD, EsD, ADA and AK) could be typed in 154 blood samples, serum protein polymorphisms (Ge, alpha 1-AT, PLG, Tf and Hp) in 160 blood samples. The results of this study are discussed in detail.     

Genetic variation and population structure in Korean endemic species: IV.Hemerocallis hakuunensis (Liliaceae)

Hemerocallis hakuunensis, a Korean endemic species, maintains considerably higher levels of allozyme variation within populations (meanHe=0.253) and substantially lower levels of allozyme divergence among populations (meanG _ST=0.077) than average values reported for other insect-pollinated, outcrossing herbs. Indirect estimates of the number of migrants per generation (Nm=3.00, calculated fromG _ST;Nm=3.57, calculated from the frequency of nine alleles unique to single populations) indicate that gene flow has been extensive inH. hakuunensis. This is somewhat surprising when we consider the fact that no specialized seed dispersal mechanism is known, flowers are visited by bees, and the present-day populations of the species are discontinous and isolated. Results of a spatial autocorrelation analysis based on mean allele frequencies of 19 populations reveal that only 13% (95/720 cases) of Moran'sI values for the ten interpopulational distance classes are significantly different from the expected values and no distinct trend with respect to the distance classes is detected. Although it is unclear how the populations are genetically homogenous, it is highly probable thatH. hakuunensis might have a history of relatively large, continuous populations that had more chance for gene movement among adjacent populations after the last Ice Age. In addition, occasional hybridization withH. thunbergii in areas of sympatry in the central and southwestern Korean Peninsula may be one factor contributing the present-day high allozyme variation observed inH. hakuunensis.     

Genetic variation and population structure in Korean endemic species: III.Hosta minor (Liliaceae)

Hosta minor, an insect-pollinated and rhizomatous herbaceous perennial, occurs in eastern and southern Korean Peninsula. AlthoughH. minor is a Korean endemic species and most populations of the species are scattered, the species maintains considerably high levels of genetic variation within the species, with a moderate level of variation (14%) found among populations. Nineteen of the 29 putative loci resolved (66%) were polymorphic within the species, the mean number of alleles per locus was 2.10 across all populations and averaged 1.68 within populations. In addition, genetic diversity was a considerably higher (for species and population level, mean estimates of genetic diversity were 0.275 and 0.230, respectively) than the average for other long-lived herbaceous perennials. Indirect estimate of the number of migrants per generation (Nm=1.03, calculated from mean G_ST) was moderate. Factors contributing to the high levels of genetic diversity found within populations ofH. minor include population maintenance via sexual and asexual modes of reproduction, primarily outcrossing breeding system, long generation time, probable ancient polyploid origin of the species, and moderate levels of seed dispersal by wind. Human disturbance in South Korea such as road and apartment constructions appears to be the major threat to this genetically diverse species.     

Genetic studies in the Garfagnana population (Tuscany, Italy)

The relationship between geographic isolation and historical-demographic features and genetic structure and pattern of variation of genetic markers was analyzed in the population of Garfagnana, a semi-isolated mountainous area in the province of Lucca (Italy), taking into account hierarchical subdivisions. A random sample of unrelated individuals, whose parents were both born in this area, was typed for AB0, MN, Kell, Rh, AK, EsD, 6-PGD, AcP and ABH secretor status. The village samples were aggregated into larger population units: Two districts and six subdistricts. Comparisons were performed with population samples of the plain and the coastal area of the same province (Lucca). Phenotype and genetic differentiations among and within subdivisions were studied using G2, R statistic, Nei's method, Harpending & Ward's method and analysis of genetic distance and similarity matrices. The various parameters consistently show significant heterogeneity among the subdivisions, both at district and at subdistrict level. As expected, the gene diversity between and within subdivisions varies according to their distinctive features of isolation.     

Genetic variation and population structure of two species of neo-tropical mud-mussels (Mytella spp)

Mytella guyanensis Lamarck (1819) and Mytella charruana d'Orbigny (1846) are widespread euryhaline bivalves that have become commercially important in Brazil. Despite their importance, however, no genetic information that would be useful to orient governmental policies is available for these species. We analyzed, through allozyme electrophoresis, populations of M. guyanensis and M. charruana along 3,500 km of Brazilian coast. Pairwise comparisons among gene frequencies in M. guyanensis resulted in high levels of pairwise gene identity (I = 0.976 to 0.998). Conversely, significant levels of population structure were found in both M. guyanensis (FST = 0.089) and M. charruana (FST = 0.102). Heterozygosity levels for both species were high (H(e) = 0.090 to 0.134 in M. guyanensis and H(e) = 0.191 to 0.228 in M. charruana). The larger population size of M. charruana could explain, at least partially, the higher levels of genetic variability for this species. These levels of genetic variability yield an effective population size estimate of about 300,000 for M. guyanensis, and 540,000 for M. charruana, based on neutralist expectations. Remarkably, these numbers are much smaller than the estimated actual population sizes. This distortion might be explained by unstable population sizes and it suggests that long-term genetic variability studies are crucial to prevent artifactual viability analysis data for these commercially exploited species.     

Genetic identification and molecular phylogeny of Pseudodiaptomus species (Calanoida, Pseudodiaptomidae) in Korean waters

Five species of the genus Pseudodiaptomus, P. inopinus, P. poplesia, P. marinus, P. nihonkaiensis, and P. sp. occur in Korea nearshore waters. Although the four species except for P. sp. have been classified into Lobus and Ramosus groups, two for each group, based on morphological characters, this classification had yet to be confirmed by molecular characters. Here, we determined molecular characters and phylogenetic relationships of the five species in order to evaluate the morphology-based groupings and the species identifications. For this, a 625-bp DNA region of the mitochondrial gene cytochrome oxidase subunit I (mtCOI) was sequenced and compared among the species. Intraspecific variation of the sequences is less than 0.6%, while interspecific variation ranges from 17.6-26.7%, indicating every species, including P. sp., is a genetically distinct, valid species. Phylogenetic trees of the mtCOI DNA reveal that the Lobus-group species including P. inopinus and P. poplesia form a well-supported clade and that P. sp. belongs to this group. On the other hand, the Ramosus group clade consisting of P. marinus and P. nihonkaiensis is not well supported by bootstrap analyses, suggesting that further evaluation of the validity of this group assignment is needed.     

Nutrient status of phytoplankton communities in Norwegian waters (marine, brackish, and fresh) as revealed by their chemical composition

The chemical composition of nutrient-saturated cultures of Emilianiahuxleyi, Amphidinium carterae, and Staurastrum luetkemuelleriwas studied. The variation in chemical composition of naturalphytoplankton communities in the North Sea, the Trondheimsfjord,and a eutrophic lake was also studied. Nutrient status was evaluatedby measurement of the algal protein/carbohydrate, N/C, P/C,and N/P ratios. Tests for P-deficiency were carried out by measuringthe increase in ATP upon addition of phosphate. At saturationthe N/C ratio was {small tilde}0.14 in marine species and {smalltilde}0.05 in Staurastrum. Saturation P/C ratios (excludingpolyphosphates) were species-dependent, ranging from 0.017 (Skeletonema)to 0.006 (Amphidinium). Amphidinium and Staurastrum store polyphosphateswhen grown in P-rich media; true marine planktonic species donot. Natural communities tended to be close to nutrient saturationat low biomass densities and nutrient deficient at high densities.In the North Sea, nitrogen was clearly limiting. In waters offthe Møre coast and in the Trondheimsfjord, growth wasnearly balanced with respect to N and P at high salinities (>25)and clearly P-limited in brackish fjord waters. In dense communities,the N/P ratio was inversely related to salinity. Freshwatercommunities were clearly P-limited, but responses were dampenedwhen daphnia or whitefish were introduced, due to increasedexcretion of nutrients. ¹Contribution No. 212, Trondheim Biological Station, N-7001Trondheim, Norway.     

Isolation and characterization of eleven polymorphic microsatellite markers of sand lance (Ammodytes personatus)

Eleven polymorphic microsatellite markers were developed to delineate population structure of Ammodytes personatus. These markers had between 8 and 27 alleles. Expected heterozygosity ranged from 0.818 to 0.965, whereas the observed heterozygosity ranged from 0.441 to 0.886. Five of the eleven markers conformed to Hardy–Weinberg equilibrium. We believe the markers will be useful for genetic diversity study of A. personatus.     

Distribution and species composition of juvenile and adult scombropids (Teleostei,Scombropidae) in Japanese coastal waters

Two scombropid fishes, Scombrops boops and Scombrops gilberti, are closely related and commercially important species in Japan. These species are often confused in commercial markets because of their morphological similarity. In this study, scombropid specimens collected from various Japanese coastal waters were subjected to polymerase chain reaction–restriction fragment length polymorphism (PCR–RFLP) analysis and phylogenetic analysis of the 16S rRNA gene in mitochondrial DNA. These analyses showed that all the scombropid specimens collected from localities in the Sea of Japan were identified as S. boops, whereas those from the Pacific Ocean included two species, S. boops and S. gilberti. Almost all juvenile (<200 mm standard body length, S_L) S. gilberti originated from the Pacific coastal waters of the northern Japan, whereas adults (>400 mm S_L) were found only in deep water off the Izu Peninsula to the Izu Islands. This suggests that S. gilberti might migrate extensively during its life cycle. In addition, differences in the number of specimens and the distribution between the two species suggest that S. gilberti is less abundant than S. boops in Japanese waters.     

Seasonal species composition of barnacle larvae (Cirripedia: Thoracica) in Rhode Island waters, 1977-1978

Cirripede larvae can occur year-round in temperate and tropicalwaters, often in significant numbers, yet the species compositionof the ‘Balanus sp.’ component is rardy studied.Weekly plankton samples were analyzed qualitatively for larvalcirripede species and stage over a year (1977–1978) attwo Rhode Island stations. Six species of larvae were foundin Lower Narragansett Bay (30° salinity). Semibalanus balanoidesand Balanus balanus have a single winter brood. S. balanoidesis the predominant winter breeder with a minor release of naupliiin early December and major release in March followed by cypridsin mid-April.B. balanus populations release all larvae in Marchwith cyprids in mid-April. Balanus crenatus is mainly a winterbreeder, but has multiple broods; it does not breed in July-Septemberwhen the water temperature is above 18°C. Balanus venustusis the predominant summer breeder, and larvae were observedfrom May through December (water >8°C). Larvae of Chthamalusfragilis and Balanus eburneus occur in low numbers from May-October.At the Pettaquamscutt River site (12 salinity), Balanus improvisuslarvae predominate and early stage nauplii (I-II) occur in samplesyear round (0–27°C). Two peaks of later stage naupliiand cyprids occur in late spring (May) and early winter (Nov.-Jan.).Continued temperatures bdow 5°C or above 20°C appearto inhibit larval development. Comparison of results with existing literature reveals severalsignificant findings. The bimodal rdease of S. balanoides larvaeis unusual and may be in response to the phytoplankton dynamicsof the year; however, the existence of distinct races of S.balanoides may also be a factor. Larvae of B. venustus predominatein the lower bay during the summer, yet this species is unreportedin past studies. B. improvisus nauplii are more cold tolerantthan previously reported. Comparison of findings with reportedbreeding patterns in Florida indicate significant differencesin temperature responses between northern and southern populations. ¹Contribution No. 188 from EPA Environmental Research Laboratory,South Ferry Rd., Narragansett, RI 02882     

The composition,structure, and distribution of benthic ostracod fauna (Ostracoda,Myodocopa) in Antarctic waters

The benthic fauna of ostracods of the order Myodocopida of Antarctic waters is characterized by high diversity, relative species abundance, and a complicated taxonomic and ecological structure, with a simplified biogeographical structure. This fauna, which is distinguished by a high level of endemicity, although at a low taxonomic rank, includes a great share of deep-sea and subtidal elements. Ostracod populations of High and Low-Antarctic subzones differ qualitatively and quantitatively. A distinct impoverishment of fauna is observed in the region of the Antarctic divergence compared to the more northern areas. The number of species increases with depth to reach its maximum in the lower subtidal zone and on the upper continental slope at depths of 200–500 m. The number of species decreases with increasing depth. Myodocopida have not been yet found in the Antarctic waters deeper than 5000 m.     

Genetic diversity and population structure in Vallisneria spinulosa (Hydrocharitaceae)

Vallisneria spinulosa is a dominant submerged macrophyte in lakes of the middle–lower reaches of the Yangtze River. Allozyme variation, clonal diversity and population genetic structure were investigated for a total of 396 individuals sampled from 10 extant populations. V. spinulosa maintained high levels of genetic variation both at the species (P = 46.2, A = 1.69, H_e = 0.23) and at the population level (P = 46.2, A = 1.58, H_e = 0.21). Although aquatic macrophytes commonly exhibit low genetic variation within populations, the obligately outcrossing mating system of V. spinulosa and pervasive gene flow likely account for the high levels of diversity maintained within populations. All V. spinulosa populations contained high clonal diversity with a mean proportion of distinguishable genotypes of 0.57 and a mean Simpson's diversity index of 0.95, indicating that populations were founded sexually or that successful seedling recruitment occurred after initial colonization. Partitioning of genetic diversity revealed a surprisingly low population differentiation (G_ST = 0.06) as compared to other hydrophilous angiosperms. No evidence of isolation-by-distance was found (r = 0.056, P = 0.312), suggesting that gene flow was not restricted geographically. The UPGMA cluster analysis revealed that several widely separated populations grouped together, suggesting long-distance gene flow among populations. The high vagility of V. spinulosa and extensive hydrologic connectivity among populations have facilitated long-distance gene flow and resulted in the pattern of population genetic structure in V. spinulosa.     

Chromosome complement, C-banding and Ag-NOR in Gymnammodytes cicerelus (Ammodytidae, Perciformes)

The karyotype of a sandlance species, Gymnammodytes cicerelus , comprises: seven meta-centric, seven submetacentric and nine subtelocentric-acrocentric pairs (2 n =46, FN=74). The C-bands appear in paracentromeric and telomeric areas of most chromosomes and the NOR regions, in two pairs of larger chromosomes. All these characteristics indicate that a large number of rearrangements seem to have been involved in the karyotype evolution of this species.     

Genetic variation and population structure of krill (Euphausia superba dana) from the Prydz Bay region of Antarctic waters

Summary Samples of Antarctic krill E. superba from six locations near Prydz Bay were analysed electrophoretically to detect genetically-based protein variation. Analyses of allele distributions at four polymorphic loci indicate no evidence of significant heterogeneity, a result consistent with the hypothesis that all samples were derived from a single breeding population of krill. The results of this study agree closely with genetic data from other studies on krill in the Atlantic sector of the Southern Ocean, suggesting that krill stocks over at least 6000 km of Antarctic waters are derived from a single interbreeding population.     

Genetic relatedness and population structure in the social wasp,Mischocyttarus mexicanus (Hymenoptera: Vespidae)

Summary In primitively eusocial wasps workers often retain the ability to become queens, so their continued performance in the worker role is partly dependent on elevated genetic relatedness between workers and the brood they rear. In colonies of the social wasp,Mischocyttarus mexicanus, workers were related to female pupae by 0.29±0.12, a value that is significantly below the full sister value of 0.75, but not significantly below 0.50, worker relatedness to daughters. Though individuals often build new nests within meters of their natal nest, there was no genetic population structure discernable among four nest clusters, or inbreeding of any kind.     

Genetic diversity and population structure of a protected species: Polygala tenuifolia Willd

Polygala tenuifolia Willd. is an important protected species used in traditional Chinese medicine. In the present study, amplified fragment length polymorphism (AFLP) markers were employed to characterize the genetic diversity in wild and cultivated P. tenuifolia populations. Twelve primer combinations of AFLP produced 310 unambiguous and repetitious bands. Among these bands, 261 (84.2%) were polymorphic. The genetic diversity was high at the species level: percentage of polymorphic loci (PPL) = 84.2%, Nei's gene diversity (h) = 0.3296 and Shannon's information index (I) = 0.4822. Between the two populations, the genetic differentiation of 0.1250 was low and the gene flow was relatively high, at 3.4989. The wild population (PPL = 81.9%, h = 0.3154, I = 0.4635) showed a higher genetic diversity level than the cultivated population (PPL = 63.9%, h = 0.2507, I = 0.3688). The results suggest that the major factors threatening the persistence of P. tenuifolia resources are ecological and human factors rather than genetic. These results will assist with the design of conservation and management programs, such as in natural habitat conservation, setting the excavation time interval for resource regeneration and the substitution of cultivated for wild plants.