Publications by authors named "Ting-Ting Yin"

26 Publications

  • Page 1 of 1

Large-scale genomic analysis reveals the genetic cost of chicken domestication.

BMC Biol 2021 Jun 16;19(1):118. Epub 2021 Jun 16.

Bangladesh Agricultural University, Mymensingh, 2202, Bangladesh.

Background: Species domestication is generally characterized by the exploitation of high-impact mutations through processes that involve complex shifting demographics of domesticated species. These include not only inbreeding and artificial selection that may lead to the emergence of evolutionary bottlenecks, but also post-divergence gene flow and introgression. Although domestication potentially affects the occurrence of both desired and undesired mutations, the way wild relatives of domesticated species evolve and how expensive the genetic cost underlying domestication is remain poorly understood. Here, we investigated the demographic history and genetic load of chicken domestication.

Results: We analyzed a dataset comprising over 800 whole genomes from both indigenous chickens and wild jungle fowls. We show that despite having a higher genetic diversity than their wild counterparts (average π, 0.00326 vs. 0.00316), the red jungle fowls, the present-day domestic chickens experienced a dramatic population size decline during their early domestication. Our analyses suggest that the concomitant bottleneck induced 2.95% more deleterious mutations across chicken genomes compared with red jungle fowls, supporting the "cost of domestication" hypothesis. Particularly, we find that 62.4% of deleterious SNPs in domestic chickens are maintained in heterozygous states and masked as recessive alleles, challenging the power of modern breeding programs to effectively eliminate these genetic loads. Finally, we suggest that positive selection decreases the incidence but increases the frequency of deleterious SNPs in domestic chicken genomes.

Conclusion: This study reveals a new landscape of demographic history and genomic changes associated with chicken domestication and provides insight into the evolutionary genomic profiles of domesticated animals managed under modern human selection.
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http://dx.doi.org/10.1186/s12915-021-01052-xDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC8207802PMC
June 2021

Genetic variation of Nigerian cattle inferred from maternal and paternal genetic markers.

PeerJ 2021 5;9:e10607. Epub 2021 Mar 5.

State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, Yunnan, China.

The African cattle provide unique genetic resources shaped up by both diverse tropical environmental conditions and human activities, the assessment of their genetic diversity will shade light on the mechanism of their remarkable adaptive capacities. We therefore analyzed the genetic diversity of cattle samples from Nigeria using both maternal and paternal DNA markers. Nigerian cattle can be assigned to 80 haplotypes based on the mitochondrial DNA (mtDNA) D-loop sequences and haplotype diversity was 0.985 + 0.005. The network showed two major matrilineal clustering: the dominant cluster constituting the Nigerian cattle together with other African cattle while the other clustered Eurasian cattle. Paternal analysis indicates only zebu haplogroup in Nigerian cattle with high genetic diversity 1.000 ± 0.016 compared to other cattle. There was no signal of maternal genetic structure in Nigerian cattle population, which may suggest an extensive genetic intermixing within the country. The absence of maternal signal in Nigerian cattle is attributable to vulnerability bottleneck of mtDNA lineages and concordance with the view of male zebu genetic introgression in African cattle. Our study shades light on the current genetic diversity in Nigerian cattle and population history in West Africa.
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http://dx.doi.org/10.7717/peerj.10607DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7938780PMC
March 2021

Genomic regions under selection in the feralization of the dingoes.

Nat Commun 2020 02 3;11(1):671. Epub 2020 Feb 3.

State Key Laboratory of Genetic Resources and Evolution, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China.

Dingoes are wild canids living in Australia, originating from domestic dogs. They have lived isolated from both the wild and the domestic ancestor, making them a unique model for studying feralization. Here, we sequence the genomes of 10 dingoes and 2 New Guinea Singing Dogs. Phylogenetic and demographic analyses show that dingoes originate from dogs in southern East Asia, which migrated via Island Southeast Asia to reach Australia around 8300 years ago, and subsequently diverged into a genetically distinct population. Selection analysis identifies 50 positively selected genes enriched in digestion and metabolism, indicating a diet change during feralization of dingoes. Thirteen of these genes have shifted allele frequencies compared to dogs but not compared to wolves. Functional assays show that an A-to-G mutation in ARHGEF7 decreases the endogenous expression, suggesting behavioral adaptations related to the transitions in environment. Our results indicate that the feralization of the dingo induced positive selection on genomic regions correlated to neurodevelopment, metabolism and reproduction, in adaptation to a wild environment.
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http://dx.doi.org/10.1038/s41467-020-14515-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6997406PMC
February 2020

In-plane optical anisotropy in ReS flakes determined by angle-resolved polarized optical contrast spectroscopy.

Nanoscale 2019 Nov 16;11(42):20199-20205. Epub 2019 Oct 16.

Division of Physics and Applied Physics, School of Physical and Mathematical Sciences, Nanyang Technological University, Singapore 637616, Singapore.

Various in-plane anisotropic properties are observed for the layered semiconducting transition metal dichalcogenide (TMD), rhenium disulfide (ReS) due to its reduced symmetry. The understanding of these unique anisotropic behaviors in ReS will promote its applications in optoelectronics. In this work, angle-resolved polarized optical contrast spectroscopy has proved to be an efficient, quantitative, and non-destructive method to probe the optical anisotropy in ReS flakes with different thicknesses. The contrast value of ReS displays the maximum intensity when the polarization of incident light is along the Re-Re chain direction, while the contrast shows the minimum value when the polarization is perpendicular. An empirical equation for in-plane anisotropic refractive index calculation has been proposed and the angle-resolved polarized optical contrasts of 1-3-layer ReS are calculated. The calculation results show good agreements with the experimental observations. This indicates that the proposed equation is indeed appropriate for the quantitative understanding of birefringence and dichroism in ReS flakes. Our results not only shed light on the identification of crystal axes in anisotropic materials by using angle-resolved polarized contrast spectroscopy, but also provide quantitative information about anisotropy in anisotropic materials such as ReS.
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http://dx.doi.org/10.1039/c9nr07502jDOI Listing
November 2019

Platelet/Lymphocyte, Lymphocyte/Monocyte, and Neutrophil/Lymphocyte Ratios as Biomarkers in Patients with Rheumatoid Arthritis and Rheumatoid Arthritis-Associated Interstitial Lung Disease.

Med Sci Monit 2019 Aug 29;25:6474-6481. Epub 2019 Aug 29.

School of Public Health, Shandong First Medical University and Shandong Academy of Medical Sciences, Taian, Shandong, China (mainland).

BACKGROUND The objective of this study was to assess the diagnostic value of platelet/lymphocyte ratio (PLR), lymphocyte/monocyte ratio (LMR), and neutrophil/lymphocyte ratio (NLR) as biomarkers in patients with rheumatoid arthritis (RA) and rheumatoid arthritis-associated interstitial lung disease (RA-ILD). MATERIAL AND METHODS Demographic and laboratory data were acquired for 198 RA and 103 RA-ILD patients and 290 healthy controls. The subjects were categorized into female and male groups and further subcategorized based on age into <60 years and ≥60 years subgroups. One-way analysis of variance (ANOVA), receiver operating characteristics (ROC), Pearson analysis, multiple linear regression analysis, and logistic regression analysis were performed to analyze the association of PLR, NLR, and LMR with RA and RA-ILD. RESULTS Mean PLR and NLR were lowest in the control group, followed by the RA and RA-ILD groups (p<0.05). Mean LMR was lowest in the RA-ILD group, followed by the RA and control groups (p<0.05). The area under the ROC (AUROC) values of the PLR to distinguish between RA and controls, RA-ILD and controls, and RA-ILD and RA were 0.676, 0.776, and 0.650, respectively (p<0.001). Multiple linear regression analysis suggested a significantly positive association between the level of PLR and the level of DAS28 (p<0.001). The odds ratio of PLR was 1.101 for RA (p=0.023) and 1.217 for RA-ILD (p<0.001) when compared to the controls. CONCLUSIONS PLR may be applied as a new biomarker for predicting and diagnosing RA and RA-ILD and for distinguishing RA-ILD patients from RA patients and healthy subjects.
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http://dx.doi.org/10.12659/MSM.916583DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6733153PMC
August 2019

The prognostic role of platelet-to-lymphocyte ratio in patients with acute heart failure: A cohort study.

Sci Rep 2019 07 23;9(1):10639. Epub 2019 Jul 23.

Department of Cardiology, Taian Central Hospital, Taian, 271000, Shandong, China.

Identification of rapid, inexpensive, and reliable prognostic factors can improve survival estimation and guide healthcare in patients with acute heart failure (AHF). In this study, we aimed to determine the prognostic value of the platelet-to-lymphocyte ratio (PLR) in patients with AHF. A total of 443 patients from two hospitals met the inclusion criteria from January 2010 to December 2017. Univariate and multivariate Cox analyses were performed to determine the association of PLR with survival. All-cause mortality was analysed using the Kaplan-Meier method. The 6-month survival rate for patients according to PLR quartiles (<110.63, 110.63-139.23, 139.23-177.17, and >177.17) were 90.09%, 76.79%, 50.07%, and 37.27%, respectively (p < 0.001). Univariate analysis identified high PLR (>110.63), old age (≥73 years), smoking habit, low estimated glomerular filtration rate (<57), and high platelet count (≥198 × 10/l) as poor prognostic factors for survival. In the multivariate analysis, after adjusting for confounding factors, the third (hazard ratio [HR] = 3.118, 95% confidence interval [CI] = 1.668-5.386, p < 0.001) and fourth (HR = 2.437, 95% CI = 1.302-3.653, p < 0.001) quartiles of PLR were identified as independent prognostic factors in patients with AHF. A higher PLR was associated with poor clinical outcomes in patients with AHF and might be a novel marker in AHF management.
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http://dx.doi.org/10.1038/s41598-019-47143-2DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6650439PMC
July 2019

A high-throughput SNP discovery strategy for RNA-seq data.

BMC Genomics 2019 Feb 27;20(1):160. Epub 2019 Feb 27.

Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, China.

Background: Single nucleotide polymorphisms (SNP) have been applied as important molecular markers in genetics and breeding studies. The rapid advance of next generation sequencing (NGS) provides a high-throughput means of SNP discovery. However, SNP development is limited by the availability of reliable SNP discovery methods. Especially, the optimum assembler and SNP caller for accurate SNP prediction from next generation sequencing data are not known.

Results: Herein we performed SNP prediction based on RNA-seq data of peach and mandarin peel tissue under a comprehensive comparison of two paired-end read lengths (125 bp and 150 bp), five assemblers (Trinity, IDBA, oases, SOAPdenovo, Trans-abyss) and two SNP callers (GATK and GBS). The predicted SNPs were compared with the authentic SNPs identified via PCR amplification followed by gene cloning and sequencing procedures. A total of 40 and 240 authentic SNPs were presented in five anthocyanin biosynthesis related genes in peach and in nine carotenogenic genes in mandarin. Putative SNPs predicted from the same RNA-seq data with different strategies led to quite divergent results. The rate of false positive SNPs was significantly lower when the paired-end read length was 150 bp compared with 125 bp. Trinity was superior to the other four assemblers and GATK was substantially superior to GBS due to a low rate of missing authentic SNPs. The combination of assembler Trinity, SNP caller GATK, and the paired-end read length 150 bp had the best performance in SNP discovery with 100% accuracy both in peach and in mandarin cases. This strategy was applied to the characterization of SNPs in peach and mandarin transcriptomes.

Conclusions: Through comparison of authentic SNPs obtained by PCR cloning strategy and putative SNPs predicted from different combinations of five assemblers, two SNP callers, and two paired-end read lengths, we provided a reliable and efficient strategy, Trinity-GATK with 150 bp paired-end read length, for SNP discovery from RNA-seq data. This strategy discovered SNP at 100% accuracy in peach and mandarin cases and might be applicable to a wide range of plants and other organisms.
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http://dx.doi.org/10.1186/s12864-019-5533-4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6391812PMC
February 2019

Comparison of the inhibition potential of parthenolide and micheliolide on various UDP-glucuronosyltransferase isoforms.

Xenobiotica 2019 Oct 25;49(10):1158-1163. Epub 2019 Apr 25.

a Department of Colorectal Surgery , Tianjin Union Medical Center , Tianjin , China.

Parthenolide (PTL) and micheliolide (MCL) are sesquiterpene lactones with similar structures, and both of them have been reported to exhibit multiple biochemical and pharmacological activities. This study aims to investigate the inhibition of these two compounds on the activity of UDP-glucuronosyltransferases (UGTs). incubation mixture for recombinant UGTs-catalyzed glucuronidation metabolism of 4-methylumbelliferone (4-MU) was utilized to investigate the inhibition potential. Inhibition kinetics (including inhibition type and parameters) were determined, and docking was employed to elucidate the inhibition difference between PTL and MCL on UGT1A1. MCL showed no inhibition toward all the UGT isoforms, and PTL showed strong inhibition toward UGT1A1. The half-maximal inhibitory concentration (IC) of PTL on the activity of UGT1A1 was determined to be 64.4 μM. Inhibition kinetics determination showed that PTL exerted noncompetitive inhibition toward UGT1A1, and the inhibition kinetic constant () was determined to be 12.1 μM. docking method has been employed to show that hydrogen bonds between PTL and the activity cavity of UGT1A1 contributed to the stronger inhibition of PTL on the activity of UGT1A1 than MCL. In conclusion, PTL can more easily induce drug-drug interaction (DDI) with clinical drugs mainly undergoing UGT1A1-catalyzed glucuronidation.
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http://dx.doi.org/10.1080/00498254.2018.1544383DOI Listing
October 2019

Effects of exenatide versus insulin glargine on body composition in overweight and obese T2DM patients: a randomized controlled trial.

Nutr Metab (Lond) 2018 1;15:67. Epub 2018 Oct 1.

Department of Endocrinology, Drum Tower Hospital Affiliated to Nanjing University Medical School, Nanjing, China.

Background: Weight loss, especially fat mass reduction, helps to improve blood glucose control, insulin sensitivity, and β-cell function. This study aimed to compare the effect of exenatide and glargine on body composition in overweight and obese patients with type 2 diabetes (T2DM) who do not achieve adequate glycemic control with metformin.

Methods: We performed a prospective, randomized study of 37 overweight or obese patients with T2DM who had inadequate glycemic control with metformin. The patients were treated with either exenatide or glargine for 16 weeks. Dual-energy X-ray absorptiometry was used to assess body composition.

Results: Post-intervention weight, body mass index (BMI), waist circumference, body mass, and fat mass were lower in patients treated with exenatide, while weight and BMI significantly increased with glargine. Reductions in weight, BMI, body fat mass, and percent fat mass (except for gynoid) were greater with exenatide than with glargine, and percent lean tissue (other than the limbs) increased with exenatide. In all body regions except for the limbs, fat mass decreased with exenatide to a greater extent than lean tissue. Glucose control, insulin resistance, and β-cell function were not different between the treatment groups.

Conclusions: For overweight and obese patients whose T2DM was inadequately controlled with metformin, exenatide and glargine achieved similar improvements in glycemic control, insulin sensitivity, and β-cell function.However, exenatide produced better weight and fat mass reduction, which were beneficial for blood glucose control. Our findings may guide the selection of appropriate drugs for glycemic and weight control.

Trial Registration: NCT02325960, registered 25 December 2014.
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http://dx.doi.org/10.1186/s12986-018-0295-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6167818PMC
October 2018

Molecular mechanism of the tree shrew's insensitivity to spiciness.

PLoS Biol 2018 07 12;16(7):e2004921. Epub 2018 Jul 12.

Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences/Key Laboratory of bioactive peptides of Yunnan Province, Kunming Institute of Zoology, Kunming, Yunnan, China.

Spicy foods elicit a pungent or hot and painful sensation that repels almost all mammals. Here, we observe that the tree shrew (Tupaia belangeri chinensis), which possesses a close relationship with primates and can directly and actively consume spicy plants. Our genomic and functional analyses reveal that a single point mutation in the tree shrew's transient receptor potential vanilloid type-1 (TRPV1) ion channel (tsV1) lowers its sensitivity to capsaicinoids, which enables the unique feeding behavior of tree shrews with regards to pungent plants. We show that strong selection for this residue in tsV1 might be driven by Piper boehmeriaefolium, a spicy plant that geographically overlaps with the tree shrew and produces Cap2, a capsaicin analog, in abundance. We propose that the mutation in tsV1 is a part of evolutionary adaptation that enables the tree shrew to tolerate pungency, thus widening the range of its diet for better survival.
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http://dx.doi.org/10.1371/journal.pbio.2004921DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6042686PMC
July 2018

Effects of liraglutide, metformin and gliclazide on body composition in patients with both type 2 diabetes and non-alcoholic fatty liver disease: A randomized trial.

J Diabetes Investig 2019 Mar 16;10(2):399-407. Epub 2018 Aug 16.

Department of Endocrinology, Drum Tower Hospital Affiliated to Nanjing University Medical School, Nanjing, China.

Aims/introduction: To compare the effects of gliclazide, liraglutide and metformin on body composition in patients with type 2 diabetes mellitus with non-alcoholic fatty liver disease.

Materials And Methods: A total of 85 patients were randomly allocated to receive gliclazide (n = 27), liraglutide (n = 29) or metformin (n = 29) monotherapy for 24 weeks. Body composition was measured using dual-energy X-ray absorptiometry.

Results: Liraglutide and metformin reduced total, trunk, limb, android and gynoid fat mass; this also led to weight reduction. However, gliclazide treatment produced no significant changes in weight or fat mass, likely because reductions in fat mass were concomitant with increases in lean tissue mass. Blood glucose concentrations and glycated hemoglobin levels improved in all treatment arms; levels of the latter were lower in patients treated with liraglutide and metformin. Serum alanine aminotransferase concentrations decreased in all treatment arms, whereas serum aspartate aminotransferase concentrations were reduced only by liraglutide and metformin. In all patients, weight loss and total, trunk, limb, and android fat mass reductions were positively correlated with decreases in serum alanine aminotransferase and aspartate aminotransferase levels, whereas reductions in waist circumference were positively correlated with lower serum alanine aminotransferase levels.

Conclusions: Compared with gliclazide, liraglutide and metformin monotherapies result in greater weight loss, reductions in body fat mass, and better blood glucose control among type 2 diabetes mellitus patients with non-alcoholic fatty liver disease. Reductions in weight, fat mass and waist circumference favorably affect hepatic function.
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http://dx.doi.org/10.1111/jdi.12888DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6400178PMC
March 2019

Comparison of Glycemic Variability in Chinese T2DM Patients Treated with Exenatide or Insulin Glargine: A Randomized Controlled Trial.

Diabetes Ther 2018 Jun 9;9(3):1253-1267. Epub 2018 May 9.

Department of Endocrinology, Drum Tower Hospital Affiliated to Nanjing University Medical School, Nanjing, China.

Introduction: Increasing the frequency of blood glucose monitoring aids the evaluation of glycemic variability and blood glucose control by antidiabetic drugs. It remains unclear, however, whether GLP-1 receptor agonists or basal insulin has a better effect on glycemic variability in type 2 diabetes mellitus (T2DM) patients who are inadequately controlled by metformin. We used a continuous glucose monitoring system (CGMS) to compare patients on a GLP-1 receptor agonist with patients on basal insulin in terms of glycemic variability.

Methods: This prospective randomized study assigned T2DM patients treated with metformin (N = 39) to either exenatide treatment or insulin glargine treatment for 16 weeks. Glycemic variability was assessed using a CGMS; hemoglobin A1c (HbA1c), β-cell function, weight, body mass index (BMI), and waist circumference were also evaluated.

Results: Mean blood glucose level, continuous overlapping net glycemic action, mean amplitude of glycemic excursions, percentage of the time that the blood glucose value was > 10.0 mmol/L, and highest blood glucose level (P  < 0.01-0.05) significantly decreased in both groups. Standard deviation of the mean glucose value, largest amplitude of glycemic excursions, and waist circumference significantly decreased for those treated with exenatide (P  < 0.05), while no changes were observed with insulin glargine treatment. Percentage of the time that the blood glucose value was > 7.8 mmol/L decreased after insulin glargine use (P  < 0.05) but not with the exenatide intervention. Similar decreases in fasting blood glucose and HbA1c and increases in the 1/homeostasis model assessment of insulin resistance, disposition index 30, and disposition index 120 were observed in both groups (P  < 0.01-0.05). Reductions in weight and BMI were greater with exenatide than with insulin glargine treatment (P  < 0.05).

Conclusions: In overweight and obese patients with T2DM inadequately controlled by metformin, exenatide and insulin glargine have similar efficacies in terms of glycemic variability, HbA1c alleviation, and β-cell function, but exenatide has a greater effect on body weight and BMI.
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http://dx.doi.org/10.1007/s13300-018-0412-6DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5984915PMC
June 2018

Complete mitochondrial genome of Sri Lankan Junglefowl () and phylogenetic study.

Mitochondrial DNA B Resour 2018 Jan 5;3(1):83-84. Epub 2018 Jan 5.

Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, China.

The complete mitochondrial genomes of two Sri Lankan junglefowl (: CJF) individuals were sequenced by using next-generation sequencing technique. Samples were collected from Rathnapura and Pelmadulla areas in Sri Lanka. The complete mitochondrial DNA is 16,839 bp in length, with a typical mitogenome structure composed of a non-coding control region, 22 tRNA, two rRNA, and 13 protein-coding genes. Overall base composition is 30% A, 23.9% T, 32.3% C, and 13.6% G indicating high content of 54.0% A + T for both individuals. Phylogenetic analysis reveals that CJF samples cluster with the clade of the green junglefowl () and red junglefowl () than to grey junglefowl (: GyJF). This result can be subsequently used to provide essential information for junglefowl evolution.
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http://dx.doi.org/10.1080/23802359.2017.1422409DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7799929PMC
January 2018

Whole-Genome Sequencing of African Dogs Provides Insights into Adaptations against Tropical Parasites.

Mol Biol Evol 2018 02;35(2):287-298

State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, and School of Life Sciences, Yunnan University, Kunming, Yunnan, China.

Natural selection in domestic dogs is of great interest in evolutionary biology since dogs have migrated to every inhabited continent of the world alongside humans, and adapted to diverse environments. Here, we explored their demographic history and genetic basis of adaptation to the tropical African environment using whole genome analyses of 19 African indigenous dogs from Nigeria. Demographic analysis suggests that the ancestors of these dogs migrated into Africa from Eurasia 14,000 years ago and underwent a severe founder effect before population expansion. Admixture analysis further reveals that African dog genomes contain about 1.88-3.50% introgression from African golden wolves (Canis anthus). Population genetic analysis identifies 50 positively selected genes linked with immunity, angiogenesis, ultraviolet protection, as well as insulin secretion and sensitivity that may contribute to adaptation to tropical conditions. One of the positively selected genes, adhesion G protein-coupled receptor E1 (ADGRE1), has also been found to be association with severe malaria resistance in African human populations. Functional assessments showed that ADGRE1 provides protective host defense against Plasmodium infections. This result, together with the fact that the inflammatory response to canine babesiosis is similar to complicated falciparum malaria in humans, support the dogs as a model for the study of malaria control and treatment.
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http://dx.doi.org/10.1093/molbev/msx258DOI Listing
February 2018

[Yiqihuoxue prescription promotes nerve regeneration by miR-124-mediated regulation of Wnt signaling in rats].

Nan Fang Yi Ke Da Xue Xue Bao 2017 Aug;37(8):1047-1053

Key Laboratory for Xin'an Medicine of the Education Ministry, Anhui Chinese Medical University, Hefei 230038, China. E-mail:

Objective: To investigate the effect of Yiqihuoxue prescription (NLXT) on nerve regeneration in MCAO-R rat models of qi deficiency and blood stasis syndrome and explore the underlying mechanisms.

Methods: The rats were randomized into 4 groups, namely the control group, model group, NLXT group and TXL group. The rats in NLXT group and TXL group were treated with gavage of NLXT and TXL solutions, respectively. The NFDS, QDSS and BSSS of the rats were evaluated. The regional cerebral blood flow (rCBF) were dynamically monitored with laser Doppler scanning, and the volume of cerebral infarction was detected with TTC-dye; the expression levels of nestin and BrdU were assayed with immunohistochemistry and mmunofluorescent staining. The expressions of miRNA-124, Wnt3a, GSK3β and β-catenin in the rat brain tissue were detected with PCR or Western blotting.

Results: NLXT and TXL both improved the neurological functions of the model rats, reduced NFDS, QDSS, and BSSS scores, decreased the volume of cerebral infarction, and promoted the recovery of the rCBF (P<0.01). Nestin and BrdU expression levels were significantly increased in the rat brain tissue in NLXT group and TXL group. NLXT significantly inhibited high expressions of miRNA-124 and Wnt3a in response to stress, and increased β-catenin expression level (P<0.01). NLXT and TXL produced no obvious effect on GSK3β expression in the model rats (P>0.05).

Conclusion: NLXT can activate Wnt signaling by affecting miRNA-124 expression to offer neuroprotection and promote nerve regeneration in rats with cerebral ischemia with qi deficiency and blood stasis syndrome.
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http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6765732PMC
August 2017

Sri Lankan pig ancestry revealed by mitochondrial DNA, Y-chromosome, and MC1R.

Anim Genet 2017 Oct 27;48(5):622-623. Epub 2017 Jul 27.

State Key Laboratory of Genetic Resources and Evolution & Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming, 650223, China.

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http://dx.doi.org/10.1111/age.12577DOI Listing
October 2017

Cytological and molecular characterization of carotenoid accumulation in normal and high-lycopene mutant oranges.

Sci Rep 2017 04 10;7(1):761. Epub 2017 Apr 10.

Zhejiang Provincial Key Laboratory of Horticultural Plant Integrative Biology, Zhejiang University, Zijingang Campus, Hangzhou, 310058, China.

Ripe Cara Cara sweet orange contains 25 times as much carotenoids in flesh as Newhall sweet orange, due to high accumulation of carotenes, mainly phytoene, lycopene and phytofluene. Only yellow globular chromoplasts were observed in Newhall flesh. Distinct yellow globular and red elongated crystalline chromoplasts were found in Cara Cara but only one type of chromoplast was present in each cell. The red crystalline chromoplasts contained lycopene as a dominant carotenoid and were associated with characteristic carotenoid sequestering structures. The increased accumulation of linear carotenes in Cara Cara is not explained by differences in expression of all 18 carotenogenic genes or gene family members examined, or sequence or abundance of mRNAs from phytoene synthase (PSY) and chromoplast-specific lycopene β-cyclase (CYCB) alleles. 2-(4-Chlorophenylthio)-triethylamine hydrochloride (CPTA) enhanced lycopene accumulation and induced occurrence of red crystalline chromoplasts in cultured Newhall juice vesicles, indicating that carotenoid synthesis and accumulation can directly affect chromoplast differentiation and structure. Norflurazon (NFZ) treatment resulted in high accumulation of phytoene and phytofluene in both oranges, and the biosynthetic activity upstream of phytoene desaturase was similar in Newhall and Cara Cara. Possible mechanisms for high carotene accumulation and unique development of red crystalline chromoplasts in Cara Cara are discussed.
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http://dx.doi.org/10.1038/s41598-017-00898-yDOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5429694PMC
April 2017

A cryptic mitochondrial DNA link between North European and West African dogs.

J Genet Genomics 2017 03 24;44(3):163-170. Epub 2016 Nov 24.

State Key Laboratory of Genetic Resources and Evolution, Yunnan Laboratory of Molecular Biology of Domestic Animals, Germplasm Bank of Wild Species, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China; Sino-Africa Joint Research Center, Chinese Academy of Sciences, Kunming 650223, China; Kunming College of Life Science, University of Chinese Academy of Sciences, Kunming 650204, China; State Key Laboratory for Conservation and Utilization of Bio-Resources, Yunnan University, Kunming 650091, China. Electronic address:

Domestic dogs have an ancient origin and a long history in Africa. Nevertheless, the timing and sources of their introduction into Africa remain enigmatic. Herein, we analyse variation in mitochondrial DNA (mtDNA) D-loop sequences from 345 Nigerian and 37 Kenyan village dogs plus 1530 published sequences of dogs from other parts of Africa, Europe and West Asia. All Kenyan dogs can be assigned to one of three haplogroups (matrilines; clades): A, B, and C, while Nigerian dogs can be assigned to one of four haplogroups A, B, C, and D. None of the African dogs exhibits a matrilineal contribution from the African wolf (Canis lupus lupaster). The genetic signal of a recent demographic expansion is detected in Nigerian dogs from West Africa. The analyses of mitochondrial genomes reveal a maternal genetic link between modern West African and North European dogs indicated by sub-haplogroup D1 (but not the entire haplogroup D) coalescing around 12,000 years ago. Incorporating molecular anthropological evidence, we propose that sub-haplogroup D1 in West African dogs could be traced back to the late-glacial dispersals, potentially associated with human hunter-gatherer migration from southwestern Europe.
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http://dx.doi.org/10.1016/j.jgg.2016.10.008DOI Listing
March 2017

Mitochondrial genetic diversity, selection and recombination in a canine transmissible cancer.

Elife 2016 05 17;5. Epub 2016 May 17.

Veterinary Clinic Lopez Quintana, Maldonado, Uruguay.

Canine transmissible venereal tumour (CTVT) is a clonally transmissible cancer that originated approximately 11,000 years ago and affects dogs worldwide. Despite the clonal origin of the CTVT nuclear genome, CTVT mitochondrial genomes (mtDNAs) have been acquired by periodic capture from transient hosts. We sequenced 449 complete mtDNAs from a global population of CTVTs, and show that mtDNA horizontal transfer has occurred at least five times, delineating five tumour clades whose distributions track two millennia of dog global migration. Negative selection has operated to prevent accumulation of deleterious mutations in captured mtDNA, and recombination has caused occasional mtDNA re-assortment. These findings implicate functional mtDNA as a driver of CTVT global metastatic spread, further highlighting the important role of mtDNA in cancer evolution.
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http://dx.doi.org/10.7554/eLife.14552DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4869914PMC
May 2016

Out of southern East Asia: the natural history of domestic dogs across the world.

Cell Res 2016 Jan 15;26(1):21-33. Epub 2015 Dec 15.

State Key Laboratory of Genetic Resources and Evolution, and Yunnan Laboratory of Molecular Biology of Domestic Animals, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.

The origin and evolution of the domestic dog remains a controversial question for the scientific community, with basic aspects such as the place and date of origin, and the number of times dogs were domesticated, open to dispute. Using whole genome sequences from a total of 58 canids (12 gray wolves, 27 primitive dogs from Asia and Africa, and a collection of 19 diverse breeds from across the world), we find that dogs from southern East Asia have significantly higher genetic diversity compared to other populations, and are the most basal group relating to gray wolves, indicating an ancient origin of domestic dogs in southern East Asia 33 000 years ago. Around 15 000 years ago, a subset of ancestral dogs started migrating to the Middle East, Africa and Europe, arriving in Europe at about 10 000 years ago. One of the out of Asia lineages also migrated back to the east, creating a series of admixed populations with the endemic Asian lineages in northern China before migrating to the New World. For the first time, our study unravels an extraordinary journey that the domestic dog has traveled on earth.
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http://dx.doi.org/10.1038/cr.2015.147DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4816135PMC
January 2016

[Recent advances in transmissible tumors].

Yi Chuan 2015 11;37(11):1086-94

Molecular Evolution and Genome Diversity Lab, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650223, China.

Transmissible tumors are a class of tumor that can be transmitted between individuals through living cells. So far, four types of transmissible tumors including canine transmissible venereal tumor (CTVT),Tasmanian devil facial tumor disease (DFTD), soft-shell clams leukemia (SSCL), and hamsters reticulum cell sarcoma (HRCS)have been discovered and identified. In the last decades, these transmissible tumors have been proved to be transmitted through living cells by cytological, histological and genetic studies. CTVT, the oldest mammalian somatic cell line, and DFTD originated from Schwann cell have been reported to avoid immunological recognition by down-regulating MHC expression, while a high copy number of Steamer retrotransposon is commonly exist in SSCL. In recent years, the whole-genome sequencing of CTVT and DFTD have been completed which facilitates studies on the mechanisms of tumorigenesis, transmission and evolution of transmissible tumors at the whole-genome level. In this review, we summarize the recent advances in transmissible tumors and discuss the research focus in next decade.
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http://dx.doi.org/10.16288/j.yczz.15-177DOI Listing
November 2015

A Family of Co(II)Co(III)3 Single-Ion Magnets with Zero-Field Slow Magnetic Relaxation: Fine Tuning of Energy Barrier by Remote Substituent and Counter Cation.

Inorg Chem 2015 Jun 18;54(11):5475-86. Epub 2015 May 18.

‡Beijing National Laboratory for Molecular Sciences, State Key Laboratory of Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.

The synthesis, structures, and magnetic properties of a family of air-stable star-shaped Co(II)Co(III)3 complexes were investigated. These complexes contain only one paramagnetic Co(II) ion with the approximate D3 coordination environment in the center and three diamagnetic Co(III) ions in the peripheral. Magnetic studies show their slow magnetic relaxation in the absence of an applied dc field, which is characteristic behavior of single-molecule magnets (SMMs), caused by the individual Co(II) ion with approximate D3 symmetry in the center. Most importantly, it was demonstrated that the anisotropy energy barrier can be finely tuned by the periphery substituent of the ligand and the countercation. The anisotropy energy barrier can be increased significantly from 38 K to 147 K.
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http://dx.doi.org/10.1021/acs.inorgchem.5b00526DOI Listing
June 2015

Cobalt(II) coordination polymer exhibiting single-ion-magnet-type field-induced slow relaxation behavior.

Inorg Chem 2015 Apr 8;54(8):3716-8. Epub 2015 Apr 8.

§Beijing National Laboratory for Molecular Sciences, State Key Laboratory of Rare Earth Materials Chemistry and Applications, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, China.

A one-dimensional cobalt(II) coordination polymer, [Co(btm)2(SCN)2·H2O]n [btm = bis(1H-1,2,4-triazol-1-yl)methane], was synthesized and magnetically characterized. The isolated slightly distorted octahedral Co(II) ion displays field-induced slow relaxation with a big positive axial and a negative rhombic magnetic anisotropy (D = 93.9 cm(-1) and E = -10.5 cm(-1)), and the anisotropy energy barrier is 45.4 K.
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http://dx.doi.org/10.1021/ic5029299DOI Listing
April 2015

The solvent effect in an axially symmetric Fe(III)4 single-molecule magnet.

Chem Commun (Camb) 2014 Dec;50(95):15090-3

Key Laboratory of Advanced Functional Materials and Devices, Anhui Province, School of Chemical Engineering, Hefei University of Technology, Hefei, Anhui 230009, P. R. China.

A pair of enantiopure Fe(III)4 SMMs with axial symmetry was synthesized and characterized by magnetization and high-frequency electron paramagnetic resonance methods. The results reveal that the axial symmetry of the structure is broken by the interaction of Fe(III)4 with the disordered solvent molecules.
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http://dx.doi.org/10.1039/c4cc07580cDOI Listing
December 2014

Knowledge, attitudes and competence in nursing practice of typhoon disaster relief work among Chinese nurses: a questionnaire survey.

Int J Nurs Pract 2015 Feb 13;21(1):60-9. Epub 2013 Nov 13.

No.174 Hospital of People's Liberation Army Clinical School, The Affiliated Chenggong Hospital of Xiamen University, Xiamen, China; Shuguang Hospital Affiliated to Shanghai University of Traditional Chinese Medicine, Shanghai, China.

The aim of this paper is to examine the relationships among nurses' knowledge of, attitudes towards and level of competence in nursing practice, as well as factors influencing nurses' competence in nursing practice, in typhoon disaster relief work. A cross-sectional descriptive study was conducted using a self-developed questionnaire to obtain data from 607 nurses working in four tertiary hospitals and two secondary hospitals in Fujian, China, in November 2011. Our findings show that the nurses' average percentage scores on their responses to questions in the domains of knowledge, attitudes and practice were 66.33%, 68.87% and 67.60%, respectively. The findings demonstrated a significant positive relationship between nurses' attitudes and their practice. Nurses' working unit, prior training in typhoon disaster relief, current position of employment and attitudes were significant predictors of nurses' competence in practice. The results indicate that strategies need to be developed for nurses to improve their knowledge, attitudes and practice.
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http://dx.doi.org/10.1111/ijn.12214DOI Listing
February 2015