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Complex traits and quantitative genetics

Section edited by Jim Reecy

This section incorporates all aspects of complex trait and quantitative genetics including but not limited to: mapping and association studies, the genetic basis of disease, genetics aspects of breeding and linkage analysis.

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  1. Content type: Research article

    The use of information across populations is an attractive approach to increase the accuracy of genomic prediction for numerically small populations. However, accuracies of across population genomic prediction...

    Authors: S. van den Berg, M. P. L. Calus, T. H. E. Meuwissen and Y. C. J. Wientjes

    Citation: BMC Genetics 2015 16:146

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  2. Content type: Research article

    Premature flowering or bolting is an undesirable characteristic that causes severe sugar yield losses and interferes with harvesting. Vernalization is a prerequisite for the floral induction, achieved by expos...

    Authors: Chiara Broccanello, Piergiorgio Stevanato, Filippo Biscarini, Dario Cantu and Massimo Saccomani

    Citation: BMC Genetics 2015 16:142

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  3. Content type: Research article

    Pulmonary function decline is a major contributor to morbidity and mortality among smokers. Post bronchodilator FEV1 and FEV1/FVC ratio are considered the standard assessment of airflow obstruction. We performed ...

    Authors: Sharon M. Lutz, Michael H. Cho, Kendra Young, Craig P. Hersh, Peter J. Castaldi, Merry-Lynn McDonald, Elizabeth Regan, Manuel Mattheisen, Dawn L. DeMeo, Margaret Parker, Marilyn Foreman, Barry J. Make, Robert L. Jensen, Richard Casaburi, David A. Lomas, Surya P. Bhatt…

    Citation: BMC Genetics 2015 16:138

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  4. Content type: Research article

    Located in the Pacific Ocean between Australia and New Zealand, the unique population isolate of Norfolk Island has been shown to exhibit increased prevalence of metabolic disorders (type-2 diabetes, cardiovas...

    Authors: M. C. Benton, R. A. Lea, D. Macartney-Coxson, C. Bellis, M. A. Carless, J. E. Curran, M. Hanna, D. Eccles, G. K. Chambers, J. Blangero and L. R. Griffiths

    Citation: BMC Genetics 2015 16:136

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  5. Content type: Research article

    Identification of genetic variants that are associated with fatty acid composition in beef will enhance our understanding of host genetic influence on the trait and also allow for more effective improvement of...

    Authors: Liuhong Chen, Chinyere Ekine-Dzivenu, Michael Vinsky, John Basarab, Jennifer Aalhus, Mike E. R. Dugan, Carolyn Fitzsimmons, Paul Stothard and Changxi Li

    Citation: BMC Genetics 2015 16:135

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  6. Content type: Research article

    Genetic variance that is not captured by single nucleotide polymorphisms (SNPs) is due to imperfect linkage disequilibrium (LD) between SNPs and quantitative trait loci (QTLs), and the extent of LD between SNP...

    Authors: Yoshinobu Uemoto, Shinji Sasaki, Takatoshi Kojima, Yoshikazu Sugimoto and Toshio Watanabe

    Citation: BMC Genetics 2015 16:134

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  7. Content type: Research article

    Individuals with dyslipidemia often develop type 2 diabetes, and diabetic patients often have dyslipidemia. It remains to be determined whether there are genetic connections between the 2 disorders.

    Authors: Qian Wang, Andrew T. Grainger, Ani Manichaikul, Emily Farber, Suna Onengut-Gumuscu and Weibin Shi

    Citation: BMC Genetics 2015 16:133

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  8. Content type: Research article

    The genetic structure of human populations is the outcome of the combined action of different processes such as demographic dynamics and natural selection. Several efforts toward the characterization of popula...

    Authors: Silvia Parolo, Antonella Lisa, Davide Gentilini, Anna Maria Di Blasio, Simona Barlera, Enrico B. Nicolis, Giorgio B. Boncoraglio, Eugenio A. Parati and Silvia Bione

    Citation: BMC Genetics 2015 16:132

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  9. Content type: Research article

    Adolescence is a sensitive period for weight gain and risky health behaviors, such as smoking. Genome-wide association studies (GWAS) have identified loci contributing to adult body mass index (BMI). Evidence ...

    Authors: Kristin L. Young, Misa Graff, Kari E. North, Andrea S. Richardson, Karen L. Mohlke, Leslie A. Lange, Ethan M. Lange, Kathleen M. Harris and Penny Gordon-Larsen

    Citation: BMC Genetics 2015 16:131

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  10. Content type: Research article

    Formation of the vertebral column is a critical developmental stage in mammals. The strict control of this process has resulted in little variation in number of vertebrae across mammalian species and no variat...

    Authors: Gary A. Rohrer, Dan J. Nonneman, Ralph T. Wiedmann and James F. Schneider

    Citation: BMC Genetics 2015 16:129

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  11. Content type: Research article

    In meta-analyses of genetic association studies, ancestry and ethnicity are not accurately investigated. Ethnicity is usually classified using conventional race/ethnic categories or continental groupings even ...

    Authors: Tania Vásquez-Loarte, Milana Trubnykova and Heinner Guio

    Citation: BMC Genetics 2015 16:128

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  12. Content type: Research article

    Inducing mutations are considered to be an effective way to create novel genetic variations and hence novel agronomical traits in wheat. This study was conducted to assess the genetic differences between Shi41...

    Authors: Xuejiao Cheng, Lingling Chai, Zhaoyan Chen, Lu Xu, Huijie Zhai, Aiju Zhao, Huiru Peng, Yingyin Yao, Mingshan You, Qixin Sun and Zhongfu Ni

    Citation: BMC Genetics 2015 16:127

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  13. Content type: Research article

    Female fertility, a fundamental trait required for animal reproduction, has gradually declined in the last 2 decades in Japanese Black cattle. To identify associated genetic variants in Japanese Black cattle, ...

    Authors: Shinji Sasaki, Takayuki Ibi, Tamako Matsuhashi, Kenji Takeda, Shogo Ikeda, Mayumi Sugimoto and Yoshikazu Sugimoto

    Citation: BMC Genetics 2015 16:123

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  14. Content type: Research article

    Current evidence shows that the CD40–CD40 ligand (CD40–CD40L) system plays a crucial role in the development, progression and outcome of systemic lupus erythematosus (SLE). The aim of this study was to investi...

    Authors: Jian-Ming Chen, Jing Guo, Chuan-Dong Wei, Chun-Fang Wang, Hong-Cheng Luo, Ye-Sheng Wei and Yan Lan

    Citation: BMC Genetics 2015 16:121

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  15. Content type: Research article

    The Nordic Red Cattle (NRC) consists of animls belonging to the Danish Red, Finnish Ayrshire, and Swedish Red breeds. Compared to the Holstein breed, NRC animals are smaller, have a shorter calving interval, lowe...

    Authors: Johanna K. Höglund, Bart Buitenhuis, Bernt Guldbrandtsen, Mogens S. Lund and Goutam Sahana

    Citation: BMC Genetics 2015 16:110

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  16. Content type: Research article

    Bovine mastitis is a typical inflammatory disease causing seriously economic loss. Genome-wide association study (GWAS) can be a powerful method to promote marker assistant selection of this kind of complex di...

    Authors: Xiao Wang, Peipei Ma, Jianfeng Liu, Qin Zhang, Yuan Zhang, Xiangdong Ding, Li Jiang, Yachun Wang, Yi Zhang, Dongxiao Sun, Shengli Zhang, Guosheng Su and Ying Yu

    Citation: BMC Genetics 2015 16:111

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  17. Content type: Research article

    People with prediabetes are at greater risk for heart attack, stroke, kidney disease, vision problems, nerve damage and high blood pressure, compared to those without the disease. Prediabetes is a complex diso...

    Authors: Tran Quang Binh, Nguyen Thi Trung Thu, Pham Tran Phuong, Bui Thi Nhung and Trinh Thi Hong Nhung

    Citation: BMC Genetics 2015 16:107

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  18. Content type: Research article

    Genotype imputation has been used to increase genomic information, allow more animals in genome-wide analyses, and reduce genotyping costs. In Brazilian beef cattle production, many animals are resulting from ...

    Authors: Tatiane C. S. Chud, Ricardo V. Ventura, Flavio S. Schenkel, Roberto Carvalheiro, Marcos E. Buzanskas, Jaqueline O. Rosa, Maurício de Alvarenga Mudadu, Marcos Vinicius G. B. da Silva, Fabiana B. Mokry, Cintia R. Marcondes, Luciana C. A. Regitano and Danísio P. Munari

    Citation: BMC Genetics 2015 16:99

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  19. Content type: Research article

    Limb bone length is an economically important trait in pigs, because it is negatively correlated with backfat thickness, and is also a determinant to the yield of hip and loin. Moreover, abnormal growth of the...

    Authors: Yuanmei Guo, Lijuan Hou, Xufei Zhang, Min Huang, Huirong Mao, Hao Chen, Junwu Ma, Congying Chen, Huashui Ai, Jun Ren and Lusheng Huang

    Citation: BMC Genetics 2015 16:95

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  20. Content type: Research article

    It has been suggested that traits with low heritability, such as fertility, may have proportionately more genetic variation arising from non-additive effects than traits with higher heritability, such as milk ...

    Authors: Hassan Aliloo, Jennie E. Pryce, Oscar González-Recio, Benjamin G. Cocks and Ben J. Hayes

    Citation: BMC Genetics 2015 16:89

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  21. Content type: Correspondence

    In 2003 the Motor Neurone Disease (MND) Association, together with The Wellcome Trust, funded the creation of a national DNA Bank specific for MND. It was anticipated that the DNA Bank would constitute an impo...

    Authors: Lucy Smith, B. C. Cupid, B. G. M. Dickie, A. Al-Chalabi, K. E. Morrison, C. E. Shaw and P. J. Shaw

    Citation: BMC Genetics 2015 16:84

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  22. Content type: Research article

    Previous reports suggested a role for iron and hepcidin in atherosclerosis. Here, we evaluated the causality of these associations from a genetic perspective via (i) a Mendelian randomization (MR) approach, (i...

    Authors: Tessel E. Galesloot, Luc L. Janss, Stephen Burgess, Lambertus A. L. M. Kiemeney, Martin den Heijer, Jacqueline de Graaf, Suzanne Holewijn, Beben Benyamin, John B. Whitfield, Dorine W. Swinkels and Sita H. Vermeulen

    Citation: BMC Genetics 2015 16:79

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  23. Content type: Research article

    Soil phosphorus (P) deficiency is one of the major limiting factors to crop production. The development of crop varieties with improved P use efficiency (PUE) is an important strategy for sustainable agricultu...

    Authors: Kai Wang, Kehui Cui, Guoling Liu, Weibo Xie, Huihui Yu, Junfeng Pan, Jianliang Huang, Lixiao Nie, Farooq Shah and Shaobing Peng

    Citation: BMC Genetics 2014 15:155

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  24. Content type: Research article

    Genotype imputation is an important tool for whole-genome prediction as it allows cost reduction of individual genotyping. However, benefits of genotype imputation have been evaluated mostly for linear additiv...

    Authors: Vivian PS Felipe, Hayrettin Okut, Daniel Gianola, Martinho A Silva and Guilherme JM Rosa

    Citation: BMC Genetics 2014 15:149

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  25. Content type: Research article

    The ZFHX3 gene, located in Chromosome 16q22.3, codes for a transcription factor which is widely expressed in human tissues. Genome-wide studies have identified associations between variants within the gene and Ka...

    Authors: Ruairidh I R Martin, W Andrew Owens, Michael S Cunnington, Bongani M Mayosi, Mauro Santibáñez Koref and Bernard D Keavney

    Citation: BMC Genetics 2014 15:136

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  26. Content type: Research article

    Myeloproliferative neoplasms (MPNs) are a group of haematological malignancies that can be characterised by a somatic mutation (JAK2V617F). This mutation causes the bone marrow to produce excessive blood cells an...

    Authors: Su Pin Koh, Shea Ping Yip, Kwok Kuen Lee, Chi Chung Chan, Sze Man Lau, Chi Shan Kho, Chi Kuen Lau, Shek Ying Lin, Yat Ming Lau, Lap Gate Wong, Ka Leung Au, Kit Fai Wong, Raymond W Chu, Pui Hung Yu, Eudora YD Chow, Kate FS Leung…

    Citation: BMC Genetics 2014 15:147

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  27. Content type: Research article

    Global trade has ensured that the ornamental horticulture continues to grow worldwide, with rose hybrids being the most economically important genus (Rosa x hybrida). Due to changes in global trade and an increas...

    Authors: Virginia W Gitonga, Carole FS Koning-Boucoiran, Kathryn Verlinden, Oene Dolstra, Richard GF Visser, Chris Maliepaard and Frans A Krens

    Citation: BMC Genetics 2014 15:146

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  28. Content type: Research article

    Linkage maps are essential tools for the study of several topics in genome biology. High density linkage maps for the porcine autosomes have been constructed exploiting the high density data provided by the Po...

    Authors: Ana I Fernández, María Muñoz, Estefânia Alves, Josep María Folch, Jose Luis Noguera, Miguel Pérez Enciso, Maria del Carmen Rodríguez and Luis Silió

    Citation: BMC Genetics 2014 15:148

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  29. Content type: Research article

    Toll-like receptors play a key role in innate immunity by recognizing pathogens and activating appropriate responses. Pathogens express several signal molecules (pathogen-associated molecular patterns, PAMPs) ...

    Authors: Flora Alfano, Simone Peletto, Maria Gabriella Lucibelli, Giorgia Borriello, Giovanna Urciuolo, Maria Grazia Maniaci, Rosanna Desiato, Michela Tarantino, Amalia Barone, Paolo Pasquali, Pier Luigi Acutis and Giorgio Galiero

    Citation: BMC Genetics 2014 15:139

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  30. Content type: Research article

    Molecular diagnosis of Inherited Retinal Dystrophies (IRD) has long been challenging due to the extensive clinical and genetic heterogeneity present in this group of disorders. Here, we describe the clinical a...

    Authors: Cristina Méndez-Vidal, Nereida Bravo-Gil, María González-del Pozo, Alicia Vela-Boza, Joaquín Dopazo, Salud Borrego and Guillermo Antiñolo

    Citation: BMC Genetics 2014 15:143

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  31. Content type: Research article

    The transcription factor 7-like 2 (TCF7L2) gene is the most significant genetic risk factor for type 2 diabetes (T2D). Association analyses were performed on participants (n = 751, aged between 30 and 64) in t...

    Authors: Hadjira Ouhaibi-Djellouli, Sounnia Mediene-Benchekor, Sarah Aïcha Lardjam-Hetraf, Imane Hamani-Medjaoui, Djabaria Naima Meroufel, Houssam Boulenouar, Xavier Hermant, Nadhira Saidi-Mehtar, Philippe Amouyel, Leila Houti, Louisa Goumidi and Aline Meirhaeghe

    Citation: BMC Genetics 2014 15:134

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  32. Content type: Research article

    Peanut is one of the major source for human consumption worldwide and its seed contain approximately 50% oil. Improvement of oil content and quality traits (high oleic and low linoleic acid) in peanut could be...

    Authors: Manish K Pandey, Ming Li Wang, Lixian Qiao, Suping Feng, Pawan Khera, Hui Wang, Brandon Tonnis, Noelle A Barkley, Jianping Wang, C Corley Holbrook, Albert K Culbreath, Rajeev K Varshney and Baozhu Guo

    Citation: BMC Genetics 2014 15:133

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  33. Content type: Research article

    Banana shrimp Fenneropenaeus merguiensis has emerged as an important aquacultured shrimp species in South East Asia and Australia. However, the quantitative genetic basis of economically important traits in this ...

    Authors: Nguyen Hong Nguyen, Jane Quinn, Daniel Powell, Abigail Elizur, Ngo Phu Thoa, Josephine Nocillado, Robert Lamont, Courtney Remilton and Wayne Knibb

    Citation: BMC Genetics 2014 15:132

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  34. Content type: Research article

    The histidine ammonia-lyse gene (HAL) encodes the histidine ammonia-lyase, which catalyzes the first reaction of histidine catabolism. In our previous genome-wide association study in Chinese Holstein cows to ide...

    Authors: Haifei Wang, Li Jiang, Wenwen Wang, Shengli Zhang, Zongjun Yin, Qin Zhang and Jian-Feng Liu

    Citation: BMC Genetics 2014 15:125

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  35. Content type: Research article

    The domestic turkey (Meleagris gallopavo) is an important agricultural species that is largely used as a meat-type bird. Characterizing genetic variation in populations of domesticated species and associating the...

    Authors: Muhammad L Aslam, John WM Bastiaansen, Hendrik-Jan Megens, Richard PMA Crooijmans, Fozia Nasreen, Le Ann Blomberg, Curtis P Van Tassell, Tad S Sonstegard, Steven G Schroeder, Martien AM Groenen and Julie A Long

    Citation: BMC Genetics 2014 15:117

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  36. Content type: Research article

    Genomic selection and genomic wide association studies are widely used methods that aim to exploit the linkage disequilibrium (LD) between markers and quantitative trait loci (QTL). Securing a sufficiently lar...

    Authors: Renata Veroneze, John WM Bastiaansen, Egbert F Knol, Simone EF Guimarães, Fabyano F Silva, Barbara Harlizius, Marcos S Lopes and Paulo S Lopes

    Citation: BMC Genetics 2014 15:126

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  37. Content type: Research article

    High temperature (heat) stress during grain filling is a major problem in most of the wheat growing areas. Developing heat tolerant cultivars has become a principal breeding goal in the Southern and Central Gr...

    Authors: Shyamal Krishna Talukder, Md Ali Babar, Kolluru Vijayalakshmi, Jesse Poland, Pagadala Venkata Vara Prasad, Robert Bowden and Allan Fritz

    Citation: BMC Genetics 2014 15:97

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  38. Content type: Research article

    The rearrangements in the 22q11.2 chromosomal region, responsible for the 22q11.2 deletion and microduplication syndromes, are frequently associated with congenital heart disease (CHD). The present work aimed ...

    Authors: Renato Pires, Lu’s M Pires, Sara O Vaz, Paula Maciel, Rui Anjos, Raquel Moniz, Claudia C Branco, Rita Cabral, Isabel M Carreira and Luisa Mota-Vieira

    Citation: BMC Genetics 2014 15:115

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  39. Content type: Research article

    There is growing evidence that the ghrelin axis, including ghrelin (GHRL) and its receptor, the growth hormone secretagogue receptor (GHSR), play a role in cancer progression. Ghrelin gene and ghrelin receptor ge...

    Authors: Noel A Pabalan, Inge Seim, Hamdi Jarjanazi and Lisa K Chopin

    Citation: BMC Genetics 2014 15:118

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  40. Content type: Research Article

    How to map quantitative trait loci (QTL) with epistasis efficiently and reliably has been a persistent problem for QTL mapping analysis. There are a number of difficulties for studying epistatic QTL. Linkage c...

    Authors: Cecelia Laurie, Shengchu Wang, Luciana Aparecida Carlini-Garcia and Zhao-Bang Zeng

    Citation: BMC Genetics 2014 15:112

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  41. Content type: Research article

    Growth and carcass traits are very important traits for broiler chickens. However, carcass traits can only be measured postmortem. Genomic selection may be a powerful tool for such traits because of its accura...

    Authors: Tianfei Liu, Hao Qu, Chenglong Luo, Dingming Shu, Jie Wang, Mogens Sandø Lund and Guosheng Su

    Citation: BMC Genetics 2014 15:110

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  42. Content type: Research article

    Root is the prime organ that sucks water and nutrients from deep layer of soil. Wild barley diversity exhibits remarkable variation in root system architecture that seems crucial in its adaptation to abiotic s...

    Authors: Ali Ahmad Naz, Md Arifuzzaman, Shumaila Muzammil, Klaus Pillen and Jens Léon

    Citation: BMC Genetics 2014 15:107

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  43. Content type: Research article

    Mastitis is a major disease of dairy cattle occurring in response to environmental exposure to infective agents with a great economic impact on dairy industry. Somatic cell count (SCC) and its log transformati...

    Authors: Maria G Strillacci, Erika Frigo, Fausta Schiavini, Antonia B Samoré, Fabiola Canavesi, Mario Vevey, Maria C Cozzi, Morris Soller, Ehud Lipkin and Alessandro Bagnato

    Citation: BMC Genetics 2014 15:106

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  44. Content type: Research article

    Feed efficiency is jointly determined by productivity and feed requirements, both of which are economically relevant traits in beef cattle production systems. The objective of this study was to identify genes/...

    Authors: Priscila SN de Oliveira, Aline SM Cesar, Michele L do Nascimento, Amália S Chaves, Polyana C Tizioto, Rymer R Tullio, Dante PD Lanna, Antonio N Rosa, Tad S Sonstegard, Gerson B Mourao, James M Reecy, Dorian J Garrick, Maurício A Mudadu, Luiz L Coutinho and Luciana CA Regitano

    Citation: BMC Genetics 2014 15:100

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  45. Content type: Research article

    Hyperphosphatemic Familial Tumoral Calcinosis (HFTC) and Hyperphosphatemic Hyperostosis Syndrome (HHS) are associated with autosomal recessive mutations in three different genes, FGF23, GALNT3 and KL, leading to ...

    Authors: Silje Rafaelsen, Stefan Johansson, Helge Ræder and Robert Bjerknes

    Citation: BMC Genetics 2014 15:98

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  46. Content type: Research article

    A susceptibility locus, Nidd2n, for type 2 diabetes has been mapped to mouse chromosome 14 (Chr 14) and confirmed using the consomic strain (C3H-Chr 14NSY) of the Nagoya-Shibata-Yasuda (NSY) mouse, an animal mode...

    Authors: Naru Babaya, Hironori Ueda, Shinsuke Noso, Yoshihisa Hiromine, Michiko Itoi-Babaya, Misato Kobayashi, Tomomi Fujisawa and Hiroshi Ikegami

    Citation: BMC Genetics 2014 15:93

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  47. Content type: Research article

    Neural tube defects (NTDs) are the second most common birth defect in humans. Dietary folic acid (FA) supplementation effectively and safely reduces the incidence of these often debilitating congenital anomali...

    Authors: Ghunwa A Nakouzi and Joseph H Nadeau

    Citation: BMC Genetics 2014 15:91

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  48. Content type: Research article

    Genomic information can be used to predict not only continuous but also categorical (e.g. binomial) traits. Several traits of interest in human medicine and agriculture present a discrete distribution of pheno...

    Authors: Filippo Biscarini, Piergiorgio Stevanato, Chiara Broccanello, Alessandra Stella and Massimo Saccomani

    Citation: BMC Genetics 2014 15:87

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