scholarly journals A haplotype-resolved genome assembly of the Nile rat facilitates exploration of the genetic basis of diabetes

2021 ◽  
Author(s):  
Huishi Toh ◽  
Chentao Yang ◽  
Giulio Formenti ◽  
Kalpana Raja ◽  
Lily Yan ◽  
...  
Keyword(s):  
Type 2 Diabetes ◽  
Genome Assembly ◽  
Genetic Basis ◽  
Model Organism ◽  
Diurnal Rhythms ◽  
Segmental Duplications ◽  
Genetic Studies ◽  
Reference Genome Assembly ◽  
Metabolic Dysfunctions

The Nile rat (Avicanthis niloticus) is an important animal model for biomedical research, including the study of diurnal rhythms and type 2 diabetes. Here, we report a 2.5 Gb, chromosome-level reference genome assembly with fully resolved parental haplotypes, generated with the Vertebrate Genomes Project (VGP). The assembly is highly contiguous, with contig N50 of 11.1 Mb, scaffold N50 of 83 Mb, and 95.2% of the sequence assigned to chromosomes. We used a novel workflow to identify 3,613 segmental duplications and quantify duplicated genes. Comparative analyses revealed unique genomic features of the Nile rat, including those that affect genes associated with type 2 diabetes and metabolic dysfunctions. These include 14 genes that are heterozygous in the Nile rat or highly diverged from the house mouse. Our findings reflect the exceptional level of genomic detail present in this assembly, which will greatly expand the potential of the Nile rat as a model organism for genetic studies.

Genomic regulation of type 2 diabetes endophenotypes: Contribution from genetic studies in the Goto-Kakizaki rat

Biochimie ◽  
2017 ◽  
Vol 143 ◽  
pp. 56-65 ◽  
Author(s):  
Marie-Thérèse Bihoreau ◽  
Marc-Emmanuel Dumas ◽  
Mark Lathrop ◽  
Dominique Gauguier
Keyword(s):  
Type 2 Diabetes ◽  
Genetic Studies ◽  
Genomic Regulation

scholarly journals How Can Genetic Studies Help Us to Understand Links Between Birth Weight and Type 2 Diabetes?

2017 ◽  
Vol 17 (4) ◽  
Author(s):  
Robin N. Beaumont ◽  
Momoko Horikoshi ◽  
Mark I. McCarthy ◽  
Rachel M. Freathy
Keyword(s):  
Type 2 Diabetes ◽  
Birth Weight ◽  
Genetic Studies

scholarly journals The Architecture of Risk for Type 2 Diabetes: Understanding Asia in the Context of Global Findings

2014 ◽  
Vol 2014 ◽  
pp. 1-21 ◽  
Author(s):  
Noraidatulakma Abdullah ◽  
John Attia ◽  
Christopher Oldmeadow ◽  
Rodney J. Scott ◽  
Elizabeth G. Holliday
Keyword(s):  
Type 2 Diabetes ◽  
Large Scale ◽  
Potential Contribution ◽  
Asian Countries ◽  
Asian Studies ◽  
Genetic Studies ◽  
Gene Environment ◽  
Diet And Lifestyle ◽  
Lifestyle Patterns

The prevalence of Type 2 diabetes is rising rapidly in both developed and developing countries. Asia is developing as the epicentre of the escalating pandemic, reflecting rapid transitions in demography, migration, diet, and lifestyle patterns. The effective management of Type 2 diabetes in Asia may be complicated by differences in prevalence, risk factor profiles, genetic risk allele frequencies, and gene-environment interactions between different Asian countries, and between Asian and other continental populations. To reduce the worldwide burden of T2D, it will be important to understand the architecture of T2D susceptibility both within and between populations. This review will provide an overview of known genetic and nongenetic risk factors for T2D, placing the results from Asian studies in the context of broader global research. Given recent evidence from large-scale genetic studies of T2D, we place special emphasis on emerging knowledge about the genetic architecture of T2D and the potential contribution of genetic effects to population differences in risk.

scholarly journals The New Perspectives on Genetic Studies of Type 2 Diabetes and Thyroid Diseases

2013 ◽  
Vol 14 (1) ◽  
pp. 33-48 ◽  
Author(s):  
Min Xu ◽  
Yufang Bi ◽  
Bin Cui ◽  
Jie Hong ◽  
Weiqing Wang ◽  
...  
Keyword(s):  
Type 2 Diabetes ◽  
Thyroid Diseases ◽  
Genetic Studies
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