Phylogenomics of several deer species revealed by comparative chromosome painting with Chinese muntjac paints

A set of Chinese muntjac (Muntiacus reevesi) chromosome-specific paints has been hybridized onto the metaphases of sika deer (Cervus nippon, CNI, 2n = 66), red deer (Cervus elaphus, CEL, 2n = 62) and tufted deer (Elaphodus cephalophus, ECE, 2n = 47). Thir

MULTIPLE GENOTYPES OF MITOCHONDRIAL-DNA WITHIN A HORSE POPULATION FROM A SMALL REGION IN YUNNAN PROVINCE OF CHINA

mtDNA genotypes of six domestic horses (three adult short horses whose heights are under 1 m and three common domestic horses) from a small region of 15 km(2) in Malipo county of Yunnan province of China were investigated by the technique of restriction fragment length polymorphism (RFLP) with restriction endonucleases which recognize 6-bp sequences. An average of fragments for an individual was obtained. Unlike other domestic animals, this population of horses exhibits high mtDNA genetic diversity. Each of the six horses has a specific mtDNA genotype showing a pattern of multiple maternal origins, as suggested by fossil and literature records. We think the population of horses is an amazing seed-resource pool of horses and hence deserves to be paid more attention from the view of conservation genetics. However it is also remarkable that we did not find any typical mtDNA genetic markers which would discriminate between short horses and common domestic horses.

Genetic diversity and population history of the red panda (Ailurus fulgens) as inferred from mitochondrial DNA sequence variations

The red panda (Ailurus fulgens) is one of the flagship species in worldwide conservation and is of special interest in evolutionary studies due to its taxonomic uniqueness. We sequenced a 236-bp fragment of the mitochondrial D-loop region in a sample of 5

Bayesian inference of population expansions in domestic bovines

< p > The past population dynamics of four domestic and one wild species of bovine were estimated using Bayesian skyline plots, a coalescent Markov chain Monte Carlo method that does not require an assumed parametric model of demographic history. Four dom

Dentin phosphoprotein frameshift mutations in hereditary dentin disorders and their variation patterns in normal human population

Background: Dentin phosphoprotein ( DPP) is the most abundant non-collagenous protein in dentin, which is highly phosphorylated and plays key roles in dentin biomineralisation. The aetiology of isolated hereditary dentin disorders in most affected familie

A common SNP of MCPH1 is associated with cranial volume variation in Chinese population

Microcephaly (MCPH) genes are informative in understanding the genetics and evolution of human brain volume. MCPH1 and abnormal spindle-like MCPH associated (ASPM) are the two known MCPH causing genes that were suggested undergone recent positive selectio

Phylogenetic study of complete cytochrome b genes in musk deer (genus Moschus) using museum samples

As an endangered animal group, musk deer (genus Moschus) are not only a great concern of wildlife conservation, but also of special interest to evolutionary studies due to long-standing arguments on the taxonomic and phylogenetic associations in this group. Using museum samples, we sequenced complete mitochondrial cytochrome b genes (1140 bp) of all suggested species of musk deer in order to reconstruct their phylogenetic history through molecular information. Our results showed that the cytochrome b gene tree is rather robust and concurred for all the algorithms employed (parsimony, maximum likelihood, and distance methods). Further, the relative rate test indicated a constant sequence substitution rate among all the species, permitting the dating of divergence events by molecular clock. According to the molecular topology, M. moschiferus branched off the earliest from a common ancestor of musk deer (about 700,000 years ago); then followed the bifurcation forming the M. berezouskii lineage and the lineage clustering M. fuscus, M. chrysogaster, and M. leucogaster (around 370,000 years before present), interestingly the most recent speciation event in musk deer happened rather recently (140,000 years ago), which might have resulted from the diversified habitats and geographic barriers in southwest China caused by gigantic movements of the Qinghai-Tibetan Plateau in history. Combining the data of current distributions, fossil records, and molecular data of this study, we suggest that the historical dispersion of musk deer might be from north to south in China. Additionally, in our further analyses involving other pecora species, musk deer was strongly supported as a monophyletic group and a valid family in Artiodactyla, closely related to Cervidae. (C) 1999 Academic Press.

Use of allozyme markers to determine the genetic structure of hatchery population of Thai pangas, Pangasius hypophthalmus of Jessore, Bangladesh

Genetic structure of hatchery population of Thai pangas (Pangasius hypophthalmus) of Jessore region, Bangladesh has been investigated from 1 January 2004 to 31 December 2004. Samples for this study were collected from five fish hatcheries viz. Asrom, Banchte Shekha, Chowdhury, Maola and Rezaul Haque. The enzymes were encoded by 15 gene loci: Adh-1*, Est-1*, G3pdh-2*, Gpi-1*, Gpi-2*, Idhp-1*, Idhp-2*, Ldh-1*, Ldh-2*, Mdh-1*, Mdh-2*, Pgm*, Sdh-1*, Sdh-2* and Sod*. Among them four (Est-1*, G3pdh-2*, Gpi-2*and Pgm*) were found to be polymorphic in different populations but only Gpi-2* was polymorphic in all the sampled populations. The mean proportion of polymorphic loci per population was the highest (26.7%) in Banchte Shekha hatchery while the mean proportion of heterozygous loci was 13.33% per individual in Banchte Shekha and Maola hatcheries. The UPGMA dendrogram of Nei's (1972) genetic distances indicated a relationship between the genetic distance and geographical difference. High genetic variability in stocks of Thai pangas was observed in the Banchte Shekha and Maola hatcheries and less variability was found in the other three hatcheries.

Population dynamics and the management of the goat fish Upenaeus sulphureus from the Bay of Bengal

FiSAT program was used to estimate population parameters of Upenaeus sulphureus from length frequency data. Loc and K were found to be 22.7 em and 0.98 year1 respectively. The Wetherall plot provided an estimate of L= and Z/K were 21.585 em and 4.759 respectively. The annual rate of natural and fishing mortality were estimated as 1.91 and 3.86 respectively. The exploitation rate was 0.668. The selection pattern Lc was 10.824 em. Recruitment pattern suggest of two uneven seasonal pulses in March-April and August-October. Peaks appeared in August-October. Maximum yield could be achieved simultaneously increasing length at first capture to 10.0 em. The length weight relationship was found to be W =0.03065 Lz.8328. Highest yield and price could be achieved by decreasing the fishing mortality to 0.9 coefficient rate.

Population dynamics of two jewfishes Jhonius argentatus and Johnieops vogleri) in the coastal waters of Bay of Bengal, Bangladesh

Population parameters of Jhonius argentatus and Johnieops vogleri in coastal waters of Bay of Bengal, Bangladesh were estimated by using FiSAT programme. The von Bertalanffy growth parameters, extreme length (cm) and growth constant K (year ·1) were found to be 46.50 and 0.59 for J. argentatus, and 33.50 and 0.85 for J.vogleri The Loc(cm) and Z/K estimates provided by Wetherall plot were 46.694 and 1.791 for J. argentatus, and 31.25 and 2.623 for J. vogleri. The annual rate of natural (M) and fishing mortality (F) were estimated as 1.12 and 0.78 for J. argentatus, and 1.56 and 1.28 for J. vogleri. Rate of exploitation (E) was estimated as 0.41 for J. argentatus and 0.45 for J. vogleri. About 80.04% of J. argentatus were found to be recruited during peak pulses (April-May) and 19.96% during lean pulses (October-November) and 85.75% J. vogleri during peak pulses (May-July) and 14.25% during lean pulses (September-October). The growth performance index(') was 3.11 for J. argentatus and 1.93 for J. vogleri. The total length and body weight relationship was found to be W = 0.0403 TL25723 for J. argentatus and W = 0.0907 TV3482 for J. vogleri.

Population dynamics and the management of the Indian mackerel Rastrelliger kanagurta from the Bay of Bengal

FiSAT program was used to estimate population parameters of Rastrelliger kanagurta from length frequency data. Loc and K were found to be 27.4 em and 0.90 year1 respectively. The Wetherall plot provided an estimate of Loc and Z/K were 26.7 cm and 4.683 respectively. The annual rate of natural and fishing mortality were estimated as 1.71 and 3.21 respectively. The exploitation rate was 0.652. The selection pattern L50 was 18.09 cm. Recruitment pattern suggests two seasonal pulses one in March-May and another in September-October. Peak recruitment appeared in March-May. Maximum yield could be achieved by decreasing length at first capture to 13.0 em. The relationship between total length and body weight was found to be W = 0.01583 L8952. Yield and stock prediction analysis suggested that highest yield and price could be achieved by decreasing the fishing mortality to 2.0 coefficient rate.

Fishery, population characteristics and stock assessment of cuttlefishes, Sepia aculeata and Sepia pharaonis at Kakinada along the east coast of India

Cuttlefishes were exploited exclusively by trawls along the coast. Growth, recruitment, mortality and exploitation rates of Sepia aculeata and Sepia pharaonis were studied. Fishery of the former was supported mainly by zero year and the latter by zero and one + age groups. Both attain sexual maturity during the first year itself and spawn during August-March with peak during November-December. Natural mortality of S.aculeata was 2.22, fishing mortality 2.34 and total mortality 4.56. It was 1.69, 1.97 and 3.66 respectively for S.pharaonis. Exploitation rate was 0.52 and Emax 0.72 for S.aculeata and it was 0.54 and 0.76 respectively for S.pharaonis. Their mortality and exploitation rates indicated that stock remains under-exploited and have considerable scope for improving the production. However, both stock and catch exhibited wide annual fluctuation with declining trend during the period. These necessitated immediate attention including measures to minimise juvenile exploitation for improving stock and fishery.

Population dynamics of killifish Aphanius dispar (Ruppel) in Sandspit area off Karachi

Growth and mortality parameters of Aphanius dispar a cyprinoides generally observed in the catches of near shore area were estimated from the length frequency data collected from Sandspit area of Karachi, using LFSA. The von Bertalanffy growth parameters were estimated as Loo=71.73 mm & K=L35/yr for Male Aphanius dispar and Loo=70.66 & K=l.41 for female. Total Mortality coefficient (Z) was estimated using Length converted catch curve which is equal to 2.12/yr, for male and for female 2.19/yr. Natural mortality (M) was estimated by Pauly's empirical formula: M=l.64/yr (male) and 1.70/yr (female). The species also displayed two cohorts a year.

Population structure of the grapsid crab, Helice tridens latimera (PARISI) in the Taiho mangrove, Okinawa, Japan

Grapsid crab Helice tridens latimera inhabiting mangroves, seashores as well as muddy and rocky areas. Ovigerous females were observed from December to May. Juveniles appeared in July and from December to April. In the laboratory they reached 9.50 mm in carapace width 4 months after hatching. It is likely that spawning of this crab occurs throughout the year.

A markov chain Monte Carlo method for estimating population mixing using Y-chromosome markers: Mixing of the Han people in China

We present a new approach for estimating mixing between populations based on non-recombining markers, specifically Y-chromosome microsatellites. A Markov chain Monte Carlo (MCMC) Bayesian statistical approach is used to calculate the posterior probability