Characters of the < em > MOCA < /em > family in wheat and < em > TaMOCA1 < /em > function in salt stress tolerance
In this study, we identified 110 MOCA genes in wheat which were classified into five clades and they differed in gene structure, protein length, conserved motifs and expression profiles in different tissues and under salt stress. TaMOCA1 was selected for further functional study in response to salt stress. TaMOCA1 was rapidly induced by NaCl treatment. The 35S::TaMOCA1-GFP construction showed the cell nucleus and cytoplasm location in wheat protoplast. TaMOCA1 over-expressing Arabidopsis seedlings formed longer primary roots and more lateral roots than the wild type ones under 50 mM NaCl treatment. The over-expressing Arab...
Source: Journal of Genetics - February 21, 2024 Category: Genetics & Stem Cells Authors: Yuxiang Qin Ping Cui Bao Zhang Yuning Wang Source Type: research

Estimation of genetic diversity of the exotic Indian trout populations by using microsatellite markers
J Genet. 2024;103:11.ABSTRACTRainbow trout (Oncorhynchus mykiss) and brown trout (Salmo trutta fario) are popular salmonid species that are reared for sport and recreational activities worldwide. In India, they were introduced and successfully established in the late 19th and early 20th centuries by the European settlers. However, until now, no studies have analysed the genetic integrity of wild trout populations in India. Therefore, this study aimed to analyse the genetic integrity of the wild rainbow trout populations from south India, one wild rainbow trout population from north India, and one wild brown trout populatio...
Source: Journal of Genetics - February 21, 2024 Category: Genetics & Stem Cells Authors: Walter Devaa Vimal Panneerselvam Ramesh Uthandakalaipandian Source Type: research

Molecular data reveals a new genus of blindsnakes within Asiatyphlopinae from India
In this study, we sampled all the reported Indotyphlops species from subcontinental India, to resolve relationships within this genus and to understand biogeographic patterns that resulted in the widespread distribution. We generated sequences for five nuclear markers which were used in the global typhlopoid phylogeny and built phylogenetic trees of the superfamily Typhlopoidea. We also carried out divergence time analysis and biogeographic analysis to understand the time and modes of dispersal and diversification of these species. The results show Indotyphlops sensu lato to be polyphyletic, with the clade consisting of I....
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Chinta Sidharthan Pragyadeep Roy K Praveen Karanth Source Type: research

FSTest: an efficient tool for cross-population fixation index estimation on variant call format files
J Genet. 2024;103:04.ABSTRACTFixation index (Fst) statistics provide critical insights into evolutionary processes affecting the structure of genetic variation within and among populations. Fst statistics have been widely applied in population and evolutionary genetics to identify genomic regions targeted by selection pressures. The FSTest 1.3 software was developed to estimate four Fst statistics of Hudson, Weir and Cockerham, Nei, and Wright using high-throughput genotyping or sequencing data. Here, we introduced FSTest 1.3 and compared its performance with two widely used software VCFtools 0.1.16 and PLINK 2.0. Chromoso...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Seyed Milad Vahedi Siavash Salek Ardestani Source Type: research

Two novel heterozygous < em > ADCY10 < /em > variants identified in Chinese pediatric patients with absorptive hypercalciuria: case report and literature review
This study aims to investigate the genotypic and phenotypic characteristics of patients with AH caused by ADCY10 gene mutations. Whole-exome sequencing and Sanger sequencing were performed on the probands and their family members, respectively. Clinical and genetic data of patients with AH caused by ADCY10 gene mutations were collected and analysed retrospectively from the present study and published literature. Two female patients (6 years old and 1 year old) with multiple bilateral kidney stones were found to have a heterozygous c.3304T>C mutation and a heterozygous c.1726C>T mutation in the ADCY10 gene. Urinary me...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Yucheng Ge Yukun Liu Ruichao Zhan Zhenqiang Zhao Wenying Wang Ye Tian Source Type: research

Transferability of < em > Nikita < /em > and < em > Sukkula < /em > retrotransposons in domestic goose ( < em > Anser anser domesticus < /em > ) genome
This article aimed to detect the existence of barley-specific Nikita and Sukkula retrotransposons in domestic geese samples and to evaluate the evolutionary relationships between these and other transposons belonging to the family Anatidae. Inter-retrotransposonamplified polymorphism-polymerase chain reaction (IRAP-PCR) method was performed for these retrotransposons movements in three diverse domestic goose populations (Chinese x Embden crossbred, Turkish White, and Turkish Multicolor). Polymorphism ratios were between 0 and 33% in all samples for Nikita and 0-73% in all samples for Sukkula. In addition, intrapopulation g...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Levent Mercan Cihat Erdem B ülbül Fatih Bilgi Sevgi Marakli Source Type: research

Role of VDR gene polymorphisms and vitamin D levels in normal and overweight patients with PCOS
In this study, we aimed to determine the relationship between VDR ApaI, TaqI and Cdx2 gene variants and VitD3 levels in PCOS patients. Patients were divided into two groups: BMI<25 and BMI>=25. VDR genotypes were determined by real-time polymerase chain reaction (PCR) and serum VitD3 levels were examined by ELISA. We observed that frequencies of the Apa1 AC genotype, C allele and Cdx2 T allele are increased in the BMI>=25 group compared to BMI<25 group. Also, the ApaI C allele, Taq1 AA genotype and A allele, Cdx2 CC genotype and C allele are associated with increased triglyceride, total cholesterol, LDL-cholest...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Z ümrüt Mine Işik Saǧlam Vuslat Lale Bakir Merve Nur Ata ş H Arzu Ergen Source Type: research

Genomewide architecture of adaptation in experimentally evolved < em > Drosophila < /em > characterized by widespread pleiotropy
J Genet. 2024;103:08.ABSTRACTDissecting the molecular basis of adaptation remains elusive despite our ability to sequence genomes and transcriptomes. At present, most genomic research on selection focusses on signatures of selective sweeps in patterns of heterozygosity. Other research has studied changes in patterns of gene expression in evolving populations but has not usually identified the genetic changes causing these shifts in expression. Here we attempt to go beyond these approaches by using machine learning tools to explore interactions between the genome, transcriptome, and life-history phenotypes in two groups of ...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Zachary S Greenspan Thomas T Barter Mark A Phillips Jos é M Ranz Michael R Rose Laurence D Mueller Source Type: research

Molecular data reveals a new genus of blindsnakes within Asiatyphlopinae from India
In this study, we sampled all the reported Indotyphlops species from subcontinental India, to resolve relationships within this genus and to understand biogeographic patterns that resulted in the widespread distribution. We generated sequences for five nuclear markers which were used in the global typhlopoid phylogeny and built phylogenetic trees of the superfamily Typhlopoidea. We also carried out divergence time analysis and biogeographic analysis to understand the time and modes of dispersal and diversification of these species. The results show Indotyphlops sensu lato to be polyphyletic, with the clade consisting of I....
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Chinta Sidharthan Pragyadeep Roy K Praveen Karanth Source Type: research

FSTest: an efficient tool for cross-population fixation index estimation on variant call format files
J Genet. 2024;103:04.ABSTRACTFixation index (Fst) statistics provide critical insights into evolutionary processes affecting the structure of genetic variation within and among populations. Fst statistics have been widely applied in population and evolutionary genetics to identify genomic regions targeted by selection pressures. The FSTest 1.3 software was developed to estimate four Fst statistics of Hudson, Weir and Cockerham, Nei, and Wright using high-throughput genotyping or sequencing data. Here, we introduced FSTest 1.3 and compared its performance with two widely used software VCFtools 0.1.16 and PLINK 2.0. Chromoso...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Seyed Milad Vahedi Siavash Salek Ardestani Source Type: research

Two novel heterozygous < em > ADCY10 < /em > variants identified in Chinese pediatric patients with absorptive hypercalciuria: case report and literature review
This study aims to investigate the genotypic and phenotypic characteristics of patients with AH caused by ADCY10 gene mutations. Whole-exome sequencing and Sanger sequencing were performed on the probands and their family members, respectively. Clinical and genetic data of patients with AH caused by ADCY10 gene mutations were collected and analysed retrospectively from the present study and published literature. Two female patients (6 years old and 1 year old) with multiple bilateral kidney stones were found to have a heterozygous c.3304T>C mutation and a heterozygous c.1726C>T mutation in the ADCY10 gene. Urinary me...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Yucheng Ge Yukun Liu Ruichao Zhan Zhenqiang Zhao Wenying Wang Ye Tian Source Type: research

Transferability of < em > Nikita < /em > and < em > Sukkula < /em > retrotransposons in domestic goose ( < em > Anser anser domesticus < /em > ) genome
This article aimed to detect the existence of barley-specific Nikita and Sukkula retrotransposons in domestic geese samples and to evaluate the evolutionary relationships between these and other transposons belonging to the family Anatidae. Inter-retrotransposonamplified polymorphism-polymerase chain reaction (IRAP-PCR) method was performed for these retrotransposons movements in three diverse domestic goose populations (Chinese x Embden crossbred, Turkish White, and Turkish Multicolor). Polymorphism ratios were between 0 and 33% in all samples for Nikita and 0-73% in all samples for Sukkula. In addition, intrapopulation g...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Levent Mercan Cihat Erdem B ülbül Fatih Bilgi Sevgi Marakli Source Type: research

Role of VDR gene polymorphisms and vitamin D levels in normal and overweight patients with PCOS
In this study, we aimed to determine the relationship between VDR ApaI, TaqI and Cdx2 gene variants and VitD3 levels in PCOS patients. Patients were divided into two groups: BMI<25 and BMI>=25. VDR genotypes were determined by real-time polymerase chain reaction (PCR) and serum VitD3 levels were examined by ELISA. We observed that frequencies of the Apa1 AC genotype, C allele and Cdx2 T allele are increased in the BMI>=25 group compared to BMI<25 group. Also, the ApaI C allele, Taq1 AA genotype and A allele, Cdx2 CC genotype and C allele are associated with increased triglyceride, total cholesterol, LDL-cholest...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Z ümrüt Mine Işik Saǧlam Vuslat Lale Bakir Merve Nur Ata ş H Arzu Ergen Source Type: research

Genomewide architecture of adaptation in experimentally evolved < em > Drosophila < /em > characterized by widespread pleiotropy
J Genet. 2024;103:08.ABSTRACTDissecting the molecular basis of adaptation remains elusive despite our ability to sequence genomes and transcriptomes. At present, most genomic research on selection focusses on signatures of selective sweeps in patterns of heterozygosity. Other research has studied changes in patterns of gene expression in evolving populations but has not usually identified the genetic changes causing these shifts in expression. Here we attempt to go beyond these approaches by using machine learning tools to explore interactions between the genome, transcriptome, and life-history phenotypes in two groups of ...
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Zachary S Greenspan Thomas T Barter Mark A Phillips Jos é M Ranz Michael R Rose Laurence D Mueller Source Type: research

Molecular data reveals a new genus of blindsnakes within Asiatyphlopinae from India
In this study, we sampled all the reported Indotyphlops species from subcontinental India, to resolve relationships within this genus and to understand biogeographic patterns that resulted in the widespread distribution. We generated sequences for five nuclear markers which were used in the global typhlopoid phylogeny and built phylogenetic trees of the superfamily Typhlopoidea. We also carried out divergence time analysis and biogeographic analysis to understand the time and modes of dispersal and diversification of these species. The results show Indotyphlops sensu lato to be polyphyletic, with the clade consisting of I....
Source: Journal of Genetics - January 23, 2024 Category: Genetics & Stem Cells Authors: Chinta Sidharthan Pragyadeep Roy K Praveen Karanth Source Type: research