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BMC Genomics

Plant genomics

Section edited by David Lightfoot and Keiichi Mochida

This section covers all aspects of the genome structure and function of plants, including crop species.

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  1. Content type: Research article

    Soybean, a major legume crop native to East Asia, presents a wealth of resources for utilization. The basic leucine zipper (bZIP) transcription factors play important roles in various biological processes incl...

    Authors: Man Zhang, Yanhui Liu, Hang Shi, Mingliang Guo, Mengnan Chai, Qing He, Maokai Yan, Du Cao, Lihua Zhao, Hanyang Cai and Yuan Qin

    Citation: BMC Genomics 2018 19:159

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  2. Content type: Research article

    The WRKY transcription factors are a class of DNA-binding proteins involved in diverse plant processes play critical roles in response to abiotic and biotic stresses. Genome-wide divergence analysis of WRKY gene ...

    Authors: Bharati Pandey, Abhinav Grover and Pradeep Sharma

    Citation: BMC Genomics 2018 19:132

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  3. Content type: Research article

    Gibberella ear rot (GER) is one of the most economically important fungal diseases of maize in the temperate zone due to moldy grain contaminated with health threatening mycotoxins. To develop resistant genoty...

    Authors: Aida Z. Kebede, Anne Johnston, Danielle Schneiderman, Whynn Bosnich and Linda J. Harris

    Citation: BMC Genomics 2018 19:131

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  4. Content type: Research article

    Zucchini fruit is susceptible to chilling injury (CI), but the response to low storage temperature is cultivar dependent. Previous reports about the response of zucchini fruit to chilling storage have been foc...

    Authors: F. Carvajal, R. Rosales, F. Palma, S. Manzano, J. Cañizares, M. Jamilena and D. Garrido

    Citation: BMC Genomics 2018 19:125

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  5. Content type: Research article

    Polypyrimidine-tract binding proteins (PTBs) are ubiquitous RNA-binding proteins in plants and animals that play diverse role in RNA metabolic processes. PTB proteins bind to target RNAs through motifs rich in...

    Authors: Kirtikumar R. Kondhare, Amit Kumar, David J. Hannapel and Anjan K. Banerjee

    Citation: BMC Genomics 2018 19:124

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  6. Content type: Research article

    Maize is well known for its exceptional structural diversity, including copy number variants (CNVs) and presence/absence variants (PAVs), and there is growing evidence for the role of structural variation in m...

    Authors: Aude Darracq, Clémentine Vitte, Stéphane Nicolas, Jorge Duarte, Jean-Philippe Pichon, Tristan Mary-Huard, Céline Chevalier, Aurélie Bérard, Marie-Christine Le Paslier, Peter Rogowsky, Alain Charcosset and Johann Joets

    Citation: BMC Genomics 2018 19:119

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  7. Content type: Research article

    Plant breeding for resistance to agricultural pests is an essential element in the development of integrated crop management systems; however, the molecular and genetic mechanisms underlying resistance are poo...

    Authors: Xiongbing Tu, Zhongkuan Liu and Zehua Zhang

    Citation: BMC Genomics 2018 19:116

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  8. Content type: Research article

    Ascochyta blight, caused by the fungus Ascochyta lentis, is one of the most destructive lentil diseases worldwide, resulting in over $16 million AUD annual loss in Australia alone. The use of resistant cultivars ...

    Authors: Mahsa Khorramdelazad, Ido Bar, Paul Whatmore, Gabrielle Smetham, Vijay Bhaaskaria, Yuedong Yang, Shahla Hosseini Bai, Nitin Mantri, Yaoqi Zhou and Rebecca Ford

    Citation: BMC Genomics 2018 19:108

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  9. Content type: Research article

    Formation of nucleosomes along eukaryotic DNA has an impact on transcription. Major transcriptional changes occur in response to low external phosphate (Pi) in plants, but the involvement of chromatin-level me...

    Authors: Qi Zhang, Dong-Ha Oh, Sandra Feuer DiTusa, Mangu V. RamanaRao, Niranjan Baisakh, Maheshi Dassanayake and Aaron P. Smith

    Citation: BMC Genomics 2018 19:97

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  10. Content type: Research article

    The interest has been increasing on the phenolic compounds in plants because of their nutritive function as food and the roles regulating plant growth. However, their underlying genetic mechanism in barley is ...

    Authors: Zhigang Han, Jingjie Zhang, Shengguan Cai, Xiaohui Chen, Xiaoyan Quan and Guoping Zhang

    Citation: BMC Genomics 2018 19:81

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  11. Content type: Research article

    Accumulation of cadmium (Cd) in maize (Zea mays L.) poses a significant risk to human health as it is ingested via the food chain. A genome-wide association study (GWAS) was conducted in a population of 269 maize...

    Authors: Xiongwei Zhao, Longxin Luo, Yanhua Cao, Yajuan Liu, Yuhua Li, Wenmei Wu, Yuzhou Lan, Yiwei Jiang, Shibin Gao, Zhiming Zhang, Yaou Shen, Guangtang Pan and Haijian Lin

    Citation: BMC Genomics 2018 19:91

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  12. Content type: Research article

    DNA methylation has a potential role in controlling gene expression and may, therefore, contribute to salinity adaptation in plants. Caliph medic (Medicago truncatula) is a model legume of moderate salinity toler...

    Authors: Mahmoud W. Yaish, Abbas Al-Lawati, Ibtisam Al-Harrasi and Himanshu Vishwas Patankar

    Citation: BMC Genomics 2018 19:78

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  13. Content type: Research article

    Heat stress is the primary abiotic stress limiting growth of cool-season grass species. The objective of this study was to determine molecular factors and metabolic pathways associated with superior heat toler...

    Authors: Yi Xu and Bingru Huang

    Citation: BMC Genomics 2018 19:70

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  14. Content type: Research article

    Research to identify and characterize stem rust resistance genes in common wheat, Triticum aestivum, has been stimulated by the emergence of Ug99-lineage races of the wheat stem rust pathogen, Puccinia graminis f...

    Authors: Jason D. Zurn, Matthew N. Rouse, Shiaoman Chao, Meriem Aoun, Godwin Macharia, Colin W. Hiebert, Zacharias A. Pretorius, J. Michael Bonman and Maricelis Acevedo

    Citation: BMC Genomics 2018 19:67

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  15. Content type: Research article

    Heat shock proteins (Hsps) are essential components in plant tolerance mechanism under various abiotic stresses. Hsp20 is the major family of heat shock proteins, but little of Hsp20 family is known in potato (So...

    Authors: Peng Zhao, Dongdong Wang, Ruoqiu Wang, Nana Kong, Chao Zhang, Chenghui Yang, Wentao Wu, Haoli Ma and Qin Chen

    Citation: BMC Genomics 2018 19:61

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  16. Content type: Research article

    De novo heterozygous assembly is an ongoing challenge requiring improved assembly approaches. In this study, three strategies were used to develop de novo Vitis vinifera ‘Sultanina’ genome assemblies for comparis...

    Authors: Sagar Patel, Zhixiu Lu, Xiaozhu Jin, Padmapriya Swaminathan, Erliang Zeng and Anne Y. Fennell

    Citation: BMC Genomics 2018 19:57

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  17. Content type: Research article

    The MADS-box transcription factors are an ancient family of genes that regulate numerous physiological and biochemical processes in plants and facilitate the development of floral organs. However, the function...

    Authors: Xuanrui Zeng, Hailun Liu, Hongyang Du, Sujing Wang, Wenming Yang, Yingjun Chi, Jiao Wang, Fang Huang and Deyue Yu

    Citation: BMC Genomics 2018 19:51

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