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Functional genetics

This section incorporates all aspects of the functional analysis of genes and genomes including but not limited to: sequence analysis and genotyping approaches to finding functional variation in genes and gene families, experimental studies of gene function, transcriptional regulation and gene expression.

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  1. The V. parahaemolyticus pandemic clone, results in the development of gastrointestinal illness in humans. Toxigenic strains of this species are frequently isolated from aquatic habitats and organisms such as moll...

    Authors: Abraham Guerrero, Bruno Gomez-Gil and Marcial Leonardo Lizarraga-Partida

    Citation: BMC Genomic Data 2021 22:38

    Content type: Research article

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  2. Skeletal muscle growth and development are closely associated with the quantity and quality of pork production. We performed a transcriptomic analysis of 12 Longissimus dorsi muscle samples from Tibetan piglets a...

    Authors: Yanping Wang, Jiying Wang, Hongmei Hu, Huaizhong Wang, Cheng Wang, Haichao Lin and Xueyan Zhao

    Citation: BMC Genomic Data 2021 22:32

    Content type: Research article

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  3. Maize kernel filling, which is closely related to the process of double fertilization and is sensitive to a variety of environmental conditions, is an important component of maize yield determination. Silk is ...

    Authors: Ting Li, Yapeng Wang, Yaqin Shi, Xiaonan Gou, Bingpeng Yang, Jianzhou Qu, Xinghua Zhang, Jiquan Xue and Shutu Xu

    Citation: BMC Genomic Data 2021 22:28

    Content type: Research article

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  4. M. morganii is a gram-negative, non-lactose fermenting and an opportunistic pathogen frequently associated with nosocomial infections. Although first isolated in 1906 from a pediatric fecal sample, not many M. mo...

    Authors: Pachi Pulusu Chanakya, Balaram Khamari, Manmath Lama, Arun Sai Kumar Peketi, Prakash Kumar, Valakunja Nagaraja and Eswarappa Pradeep Bulagonda

    Citation: BMC Genomic Data 2021 22:27

    Content type: Data note

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  5. Porcine milk is a complex fluid, containing a myriad of immunological, biochemical, and cellular components, made to satisfy the nutritional requirements of the neonate. Whole milk contains many different cell...

    Authors: Brittney N. Keel, Amanda K. Lindholm-Perry, William T. Oliver, James E. Wells, Shuna A. Jones and Lea A. Rempel

    Citation: BMC Genomic Data 2021 22:25

    Content type: Research article

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  6. MicroRNAs (miRNAs) are short (20–24 nt) non-coding RNAs that are involved in post-transcriptional regulation of gene expression in multicellular organisms by affecting both the stability and translation of mRN...

    Authors: Emiel P. C. van der Vorst, Mario A. A. Pepe, Linsey J. F. Peters, Markus Haberbosch, Yvonne Jansen, Ronald Naumann, Georgios T. Stathopoulos, Christian Weber and Kiril Bidzhekov

    Citation: BMC Genomic Data 2021 22:23

    Content type: Research article

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    The Correction to this article has been published in BMC Genomic Data 2021 22:36

  7. Alpinia oxyphylla Miq. is an important edible and medicinal herb, and its dried fruits are widely used in traditional herbal medicine. Flavonoids are one of the main chemical compounds in A. oxyphylla; however, t...

    Authors: Lin Yuan, Kun Pan, Yonghui Li, Bo Yi and Bingmiao Gao

    Citation: BMC Genomic Data 2021 22:19

    Content type: Research article

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  8. Bioengineering has demonstrated the potential of utilising mesenchymal stem cells (MSCs), growth factors, and mechanical stimuli to treat cartilage defects. However, the underlying genes and pathways are large...

    Authors: Jishizhan Chen, Lidan Chen, Jia Hua and Wenhui Song

    Citation: BMC Genomic Data 2021 22:13

    Content type: Research article

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  9. Phosphorus (P), in its orthophosphate form (Pi) is an essential macronutrient for oil palm early growth development in which Pi deficiency could later on be reflected in lower biomass production. Application o...

    Authors: Sze-Ling Kong, Siti Nor Akmar Abdullah, Chai-Ling Ho, Mohamed Hanafi bin Musa and Wan-Chin Yeap

    Citation: BMC Genomic Data 2021 22:6

    Content type: Research article

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  10. Lesion mimics (LMs) are disease-like symptoms that occur randomly on plant green leaves in the absence of pathogens. A previous study showed that LMs are related to enhanced resistance to a broad spectrum of d...

    Authors: Rong Liu, Jing Lu, Shigang Zheng, Mei Du, Chihong Zhang, Minxiu Wang, Yunfang Li, Jiayi Xing, Yu Wu and Lei Zhang

    Citation: BMC Genomic Data 2021 22:1

    Content type: Research article

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  11. The coat colour of fallow deer is highly variable and even white animals can regularly be observed in game farming and in the wild. Affected animals do not show complete albinism but rather some residual pigme...

    Authors: Gerald Reiner, Tim Weber, Florian Nietfeld, Dominik Fischer, Christine Wurmser, Ruedi Fries and Hermann Willems

    Citation: BMC Genetics 2020 21:126

    Content type: Research article

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  12. R2R3 myeloblastosis (MYB) genes are widely distributed in plants and comprise one of the largest transcription factor gene families. They play important roles in the regulatory networks controlling development, m...

    Authors: Yanzhao Zhang, Shuzhen Xu, Yanwei Cheng, Jing Wang, Xiangxiang Wang, Runxiao Liu and Jianming Han

    Citation: BMC Genetics 2020 21:124

    Content type: Research article

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  13. Banana Fusarium wilt is a devastating disease of bananas caused by Fusarium oxysporum f. sp. cubense (Foc) and is a serious threat to the global banana industry. Knowledge of the pathogenic molecular mechanism an...

    Authors: Honghong Dong, Yiting Ye, Yongyi Guo and Huaping Li

    Citation: BMC Genetics 2020 21:122

    Content type: Research article

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  14. The interleukin-10 receptor alpha (IL10RA) gene codes for the alpha chain of the IL-10 receptor which binds the cytokine IL-10. IL-10 is an anti-inflammatory cytokine with immunoregulatory function during the pat...

    Authors: Sanjay Mallikarjunappa, Umesh K. Shandilya, Ankita Sharma, Kristen Lamers, Nathalie Bissonnette, Niel A. Karrow and Kieran G. Meade

    Citation: BMC Genetics 2020 21:121

    Content type: Research article

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  15. Beta-amyloid peptide (Aβ) is the key protein in the pathogenesis of Alzheimer’s disease, the most common age-related neurodegenerative disorder in humans. Aβ peptide induced pathological phenotypes in differen...

    Authors: Mikhail V. Shaposhnikov, Nadezhda V. Zemskaya, Lyubov А. Koval, Natalya R. Minnikhanova, Olga I. Kechko, Vladimir A. Mitkevich, Alexander A. Makarov and Alexey А. Moskalev

    Citation: BMC Genetics 2020 21(Suppl 1):65

    Content type: Research

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    This article is part of a Supplement: Volume 21 Supplement 1

  16. In order to study the relations of hepatocellular functions, weight gain and metabolic imbalance caused by low-dose antibiotics (LDA) via epigenetic regulation of gene transcription, 32 weaned piglets were emp...

    Authors: Yue Hu, Yihe Zhang, Cong Liu, Rui Qin, Desheng Gong, Ru Wang, Du Zhang, Lianqiang Che, Daiwen Chen, Guizhong Xin, Fei Gao and Qi Hu

    Citation: BMC Genetics 2020 21:112

    Content type: Research article

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  17. Reference genes are usually stably expressed in various cells and tissues. However, it was reported that the expression of some reference genes may be distinct in different species. In this study, we intend to...

    Authors: Wenbin Liu, Xiudan Yuan, Shuli Yuan, Liuye Dai, Shenghua Dong, Jinhui Liu, Liangyue Peng, Minmeng Wang, Yi Tang and Yamei Xiao

    Citation: BMC Genetics 2020 21:107

    Content type: Research article

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  18. Plant calmodulin-binding transcription activator (CAMTA) proteins play important roles in hormone signal transduction, developmental regulation, and environmental stress tolerance. However, in wheat, the CAMTA ge...

    Authors: Fan Yang, Fu-shuang Dong, Fang-hui Hu, Yong-wei Liu, Jian-fang Chai, He Zhao, Meng-yu Lv and Shuo Zhou

    Citation: BMC Genetics 2020 21:105

    Content type: Research article

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  19. WRKY transcription factors (TFs) have been suggested to play crucial roles in the response to biotic and abiotic stresses. This study is the first to report the alkaline salt regulation of the WRKY gene.

    Authors: Xin Wang, Zainab Ajab, Chenxi Liu, Songmiao Hu, Jiali Liu and Qingjie Guan

    Citation: BMC Genetics 2020 21:103

    Content type: Research article

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  20. The complement cascade is increasingly implicated in development of a variety of diseases with strong immune contributions such as Alzheimer’s disease and Systemic Lupus Erythematosus. Mouse models have been u...

    Authors: Harriet M. Jackson, Kate E. Foley, Rita O’Rourke, Timothy M. Stearns, Dina Fathalla, B. Paul Morgan and Gareth R. Howell

    Citation: BMC Genetics 2020 21:101

    Content type: Research article

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  21. The Human Leukocyte Antigen G (HLA-G) protein is an immune tolerogenic molecule with 7 isoforms. The change of expression level and some polymorphisms of the HLA-G gene are involved in various pathologies. The...

    Authors: Elaheh Emadi, Fatemeh Akhoundi, Seyed Mehdi Kalantar and Modjtaba Emadi-Baygi

    Citation: BMC Genetics 2020 21:94

    Content type: Research article

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  22. Although the molecular function of wolframin remains unclear, the lack of this protein is known to cause stress in the endoplasmic reticulum. Some variants in the Wolfram Syndrome 1 gene (WFS1) were associated wi...

    Authors: Dora Koller, Eniko Kubinyi, Zsuzsanna Elek, Helga Nemeth, Adam Miklosi, Maria Sasvari-Szekely and Zsolt Ronai

    Citation: BMC Genetics 2020 21:82

    Content type: Research article

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  23. The HTR1B gene encodes the 5-hydroxytryptamine (5-HT1B) receptor, which is involved in a variety of brain activities and mental disorders. The regulatory effects of non-coding regions on genomic DNA are one of ma...

    Authors: Xi Xia, Mei Ding, Jin-feng Xuan, Jia-xin Xing, Hao Pang, Jun Yao, Xue Wu and Bao-jie Wang

    Citation: BMC Genetics 2020 21:79

    Content type: Research article

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  24. RNA-sequencing was performed to explore the bovine liver transcriptomes of Holstein cows to detect potential functional genes related to lactation and milk composition traits in dairy cattle. The bovine transc...

    Authors: Qian Li, Ruobing Liang, Yan Li, Yanxia Gao, Qiufeng Li, Dongxiao Sun and Jianguo Li

    Citation: BMC Genetics 2020 21:72

    Content type: Research article

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  25. Activated charcoal (AC) is highly adsorbent and is often used to promote seedling growth in plant tissue culture; however, the underlying molecular mechanism remains unclear. In this study, root and leaf tissu...

    Authors: Fu-shuang Dong, Meng-yu lv, Jin-ping Wang, Xue-ping Shi, Xin-xia Liang, Yong-wei Liu, Fan Yang, He Zhao, Jian-Fang Chai and Shuo Zhou

    Citation: BMC Genetics 2020 21:69

    Content type: Research article

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  26. Antimicrobial peptides play important roles in both plant and animal defense systems. Moreover, over-expression of CaAMP1 (Capsicum annuum antimicrobial protein 1), an antimicrobial protein gene isolated from C. ...

    Authors: Lu Niu, Xiaofang Zhong, Yuanyu Zhang, Jing Yang, Guojie Xing, Haiyun Li, Dongbo Liu, Rui Ma, Yingshan Dong and Xiangdong Yang

    Citation: BMC Genetics 2020 21:68

    Content type: Research article

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  27. The exploitation of novel alleles from wild rice that were lost during rice cultivation could be very important for rice breeding and evolutionary studies. Plant height (PH) was a target of artificial selectio...

    Authors: Lizhen Zhang, Jingfen Huang, Yanyan Wang, Rui Xu, Ziyi Yang, Zhigang Zhao, Shijia Liu, Yunlu Tian, Xiaoming Zheng, Fei Li, Junrui Wang, Yue Song, Jiaqi Li, Yongxia Cui, Li-Fang Zhang, Yunlian Cheng…

    Citation: BMC Genetics 2020 21:62

    Content type: Research article

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  28. Bacterial chondronecrosis with osteomyelitis (BCO) develops in the growth plate (GP) of the proximal femur and tibia and is initiated by damage to the less mineralized chondrocytes followed by colonization of ...

    Authors: Haniel Cedraz de Oliveira, Adriana Mércia Guaratini Ibelli, Simone Eliza Facioni Guimarães, Mauricio Egídio Cantão, Jane de Oliveira Peixoto, Luiz Lehmann Coutinho and Mônica Corrêa Ledur

    Citation: BMC Genetics 2020 21:58

    Content type: Research article

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  29. TERMINAL FLOWER 1 (TFL1) is a member of phosphatidylethanolamine-binding protein (PEBP) family, which plays an important role in the determination of floral meristem identity and regulates flowering time in highe...

    Authors: Sukarkarn Sriboon, Haitao Li, Chaocheng Guo, Thaveep Senkhamwong, Cheng Dai and Kede Liu

    Citation: BMC Genetics 2020 21:52

    Content type: Research article

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  30. Development of wheat cultivars with multiple disease resistance and high quality are major objectives in modern wheat breeding programs. Gene stacking is an efficient approach to achieve this target. In this s...

    Authors: Weijun Zheng, Song Li, ZiHui Liu, Qi Zhou, Yanru Feng and Shoucheng Chai

    Citation: BMC Genetics 2020 21:45

    Content type: Research article

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  31. While sodium is attractive at low and aversive at high concentrations in most studied species, including Caenorhabditis elegans, the molecular mechanisms behind transduction remain poorly understood. Additionally...

    Authors: Joseph Dao, Aileen Lee, Dana K. Drecksel, Nicole M. Bittlingmaier and Theodore M. Nelson

    Citation: BMC Genetics 2020 21:37

    Content type: Research article

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  32. Intramuscular fat (IMF) content is an important factor in porcine meat quality. Previously, we showed that miR-34a was less abundant in liver tissue from pigs with higher backfat thickness, compared to pigs wi...

    Authors: Wenwen Wang, Xiuxiu Li, Ning Ding, Jun Teng, Shen Zhang, Qin Zhang and Hui Tang

    Citation: BMC Genetics 2020 21:33

    Content type: Research article

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  33. Hox transcription factors are master regulators of animal development. Although highly conserved, they can contribute to the formation of novel biological characteristics when modified, such as during the generat...

    Authors: Rurong Zhao, Yude Wang, Li Zou, Yaxin Luo, Huifang Tan, Jiajun Yao, Minghe Zhang and Shaojun Liu

    Citation: BMC Genetics 2020 21:24

    Content type: Research article

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  34. Buffalo milk is considered as a highly nutritious food owing to its higher contents of fatty acids (FA) and rich nutrient profile. Higher fat contents of buffalo milk make it suitable for processing to develop...

    Authors: Zhipeng Li, Suyu Lu, Kuiqing Cui, Laiba Shafique, Saif ur Rehman, Chan Luo, Zhiqiang Wang, Jue Ruan, Qian Qian and Qingyou Liu

    Citation: BMC Genetics 2020 21:23

    Content type: Research article

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  35. Solute carrier family 35 (SLC35) is one of a large number of membrane transporter protein families. Member D3 of this family is thought to be involved in adipose deposition and metabolic control.

    Authors: Wentong Li, Keliang Wu, Ying Liu, Yalan Yang, Wenwen Wang, Xiuxiu Li, Yanmin Zhang, Qin Zhang, Rong Zhou and Hui Tang

    Citation: BMC Genetics 2020 21:20

    Content type: Research article

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  36. Red deer with very pale coat colour are observed sporadically. In the red deer (Cervus elaphus) population of Reinhardswald in Germany, about 5% of animals have a white coat colour that is not associated with alb...

    Authors: Gerald Reiner, Kirsten Tramberend, Florian Nietfeld, Klaus Volmer, Christine Wurmser, Ruedi Fries and Hermann Willems

    Citation: BMC Genetics 2020 21:14

    Content type: Research article

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  37. Cage-rearing in laying ducks, as a novel rearing system, not only fundamentally solves the pollution problem of the duck industry and improve bio-safety and product quality but also exhibits more benefits by i...

    Authors: Yang Zhang, Tiantian Gu, Yong Tian, Li Chen, Guoqin Li, Wei Zhou, Guofa Liu, Xinsheng Wu, Tao Zeng, Qi Xu, Guohong Chen and Lizhi Lu

    Citation: BMC Genetics 2019 20:103

    Content type: Research article

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  38. Grain weight is an important yield component. Selection of advanced lines with heavy grains show high grain sink potentials and strong sink activity, which is an increasingly important objective in wheat breed...

    Authors: Jian Yang, Yanjie Zhou, Yu’e Zhang, Weiguo Hu, Qiuhong Wu, Yongxing Chen, Xicheng Wang, Guanghao Guo, Zhiyong Liu, Tingjie Cao and Hong Zhao

    Citation: BMC Genetics 2019 20:98

    Content type: Research article

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  39. Fish immunity is not only affected by the innate immune pathways but is also triggered by stress. Transport and loading stress can induce oxidative stress and further activate the immune inflammatory response,...

    Authors: Fukuan Du, Yan Li, Jing Shen, Yueshui Zhao, Parham Jabbarzadeh Kaboli, Shixin Xiang, Xu Wu, Mingxing Li, Jiangyao Zhou, Yuan Zheng, Tao Yi, Xiang Li, Jing Li, Zhangang Xiao and Qinglian Wen

    Citation: BMC Genetics 2019 20:95

    Content type: Research article

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  40. Tea-oil tree (Camellia oleifera) is a unique edible-oil tree in China, and anthracnose occurs in wherever it is cultivated, causing great economic losses each year. We have previously identified the Ascomycete fu...

    Authors: Shengpei Zhang, Yuan Guo, Sizheng Li, Guoying Zhou, Junang Liu, Jianping Xu and He Li

    Citation: BMC Genetics 2019 20:94

    Content type: Research article

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  41. WRKY DNA-binding protein (WRKY) is a large gene family involved in plant responses and adaptation to salt, drought, cold and heat stresses. Sweet potato from the genus Ipomoea is a staple food crop, but the WRKY ...

    Authors: Yuxia Li, Lei Zhang, Panpan Zhu, Qinghe Cao, Jian Sun, Zongyun Li and Tao Xu

    Citation: BMC Genetics 2019 20:90

    Content type: Research article

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  42. Over the relatively short history of Genome Wide Association Studies (GWASs), hundreds of GWASs have been published and thousands of disease risk-associated SNPs have been identified. Summary statistics from t...

    Authors: Ivan Gorlov, Xiangjun Xiao, Maureen Mayes, Olga Gorlova and Christopher Amos

    Citation: BMC Genetics 2019 20:85

    Content type: Research article

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  43. Crossover localization during meiotic recombination is mediated by the fast-evolving zinc-finger (ZnF) domain of gene PRDM9. To study its impact on dairy cattle performance, we compared its genetic variation betw...

    Authors: Eyal Seroussi, Andrey Shirak, Moran Gershoni, Ephraim Ezra, Daniel Jordan de Abreu Santos, Li Ma and George E. Liu

    Citation: BMC Genetics 2019 20:71

    Content type: Research article

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  44. The tryptophan-arginine-lysine-tyrosine (WRKY) transcription factors play important roles in plants, allowing them to adapt to environmental conditions that are not normally conducive to plant growth; in parti...

    Authors: Yuan Guo, Wenjing Ping, Jingtang Chen, Liying Zhu, Yongfeng Zhao, Jinjie Guo and Yaqun Huang

    Citation: BMC Genetics 2019 20:63

    Content type: Research article

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  45. Auxins play an important role in plant growth and development; the auxins responsive gene; auxin/indole-3-acetic acid (Aux/IAA), small auxin-up RNAs (SAUR) and Gretchen Hagen3 (GH3) control their mechanisms. The

    Authors: Joy Nyangasi Kirungu, Richard Odongo Magwanga, Pu Lu, Xiaoyan Cai, Zhongli Zhou, Xingxing Wang, Renhai Peng, Kunbo Wang and Fang Liu

    Citation: BMC Genetics 2019 20:62

    Content type: Research article

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  46. Overgrazing is a major factor that causes steppe degradation in Inner Mongolian, resulting in extensive ecosystem damage. Scarcity of grass means sheep are smaller and therefore mutton and cashmere production ...

    Authors: Weibo Ren, Warwick Badgery, Yong Ding, Huiqin Guo, Yang Gao and Jize Zhang

    Citation: BMC Genetics 2019 20:54

    Content type: Research article

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  47. We have previously identified 11 promising candidate genes for milk composition traits by resequencing the whole genomes of 8 Holstein bulls with extremely high and low estimated breeding values for milk prote...

    Authors: Jianping Jiang, Lin Liu, Yahui Gao, Lijun Shi, Yanhua Li, Weijun Liang and Dongxiao Sun

    Citation: BMC Genetics 2019 20:48

    Content type: Research article

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  48. Sesame (Sesamum indicum) can accumulate over 60% oil in its seed. However, low oil content genotypes with an oil content of less than 50% are also observed. To gain insights into how genes shape this variation, w...

    Authors: Linhai Wang, Yanxin Zhang, Donghua Li, Komivi Dossa, Ming Li Wang, Rong Zhou, Jingyin Yu and Xiurong Zhang

    Citation: BMC Genetics 2019 20:45

    Content type: Research article

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  49. High isoelectric point α-amylase genes (Amy1) play major roles during cereal seed germination, and are associated with unacceptable high residual α-amylase activities in ripe wheat grains. However, in wheat and b...

    Authors: Liangliang Ju, Guangbing Deng, Junjun Liang, Haili Zhang, Qiao Li, Zhifen Pan, Maoqun Yu and Hai Long

    Citation: BMC Genetics 2019 20:25

    Content type: Research article

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As a result of the significant disruption that is being caused by the COVID-19 pandemic we are very aware that many researchers will have difficulty in meeting the timelines associated with our peer review process during normal times.  Please do let us know if you need additional time. Our systems will continue to remind you of the original timelines but we intend to be highly flexible at this time.