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The Plant Genome | First Look

the plant genome coverArticles are posted here immediately following acceptance to provide faster publication and better access to the newest research. These articles have not been professionally edited and do not appear as they will in the final journal issue. Finalized manuscripts will be compiled in the next issue of The Plant Genome.

Online ISSN: 1940-3372

Citation | Articles posted here may be cited by the doi. Ex. Joseph, B., J.A. Schlueter, J.Du, M.A. Graham, J. Ma, and R.C. Shoemaker. 2009. Retrotransposons within Syntenic Regions between Soybean and Medicago truncatula and Their Contribution to Local Genome Evolution. Plant Gen., 10.3835/plantgenome2009.01.0001.

  The Plant Genome is an open-access journal.

 

 

Original Research

Genome-Wide Association Analysis of Diverse Soybean Genotypes Reveals Novel Markers for Nitrogen Derived from Atmosphere, Nitrogen Concentration, and Carbon/Nitrogen Ratio
Arun Prabhu Dhanapal, Jeffery D. Ray, Shardendu K. Singh, Valerio Hoyos-Villegas, James R. Smith, Larry C. Purcell, C. Andy King, and Felix B. Fritschi
doi: 10.3835/plantgenome2014.11.0086; Posted 23 June 2015
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Interacting Transcriptomes Revealing Molecular Mechanisms Underlying Xa39 Mediated Broad Spectrum Resistance of Rice to Bacterial Blight
Fan Zhang, Liyu Huang, Fan Zhang, Dandan Hu, Weijian Wu, Wensheng Wang, Jauhar Ali, Casiana Vera Cruz, Yongli Zhou, and Zhikang Li
doi: 10.3835/plantgenome2014.12.0094; Posted 23 June 2015
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MicroRNA Regulation of Abiotic Stress Response in 7B-1 Male-Sterile Tomato Mutant
Vahid Omidvar, Irina Mohorianu, Tamas Dalmay, and Martin Fellner
doi: 10.3835/plantgenome2015.02.0008; Posted 23 June 2015
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Genes Encoding Aluminum-Activated Malate Transporter II and their Association with Fruit Acidity in Apple
Baiquan Ma, Liao Liao, Hongyu Zheng, Jie Chen, Benhong Wu, Collins Ogutu, Shaohua Li, Schuyler S. Korban, and Yuepeng Han
doi: 10.3835/plantgenome2015.03.0016; Posted 23 June 2015
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The Wheat Snn7 Gene Confers Susceptibility on Recognition of the Parastagonospora nodorum Necrotrophic Effector SnTox7
Gongjun Shi, Timothy L. Friesen, Jyoti Saini, Steven S. Xu, Jack B. Rasmussen, and Justin D. Faris
doi: 10.3835/plantgenome2015.02.0007; Posted 13 May 2015
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Subgenomic Diversity Patterns Caused by Directional Selection in Bread Wheat Genepools
Kai Voss-Fels, Matthias Frisch, Lunwen Qian, Stefan Kontowski, Wolfgang Friedt, Sven Gottwald, and Rod J. Snowdon
doi: 10.3835/plantgenome2015.03.0013; Posted 12 May 2015
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Genomic Prediction of Biomass Yield in Two Selection Cycles of a Tetraploid Alfalfa Breeding Population
Xuehui Li, Yanling Wei, Ananta Acharya, Julie L. Hansen, Jamie L. Crawford, Donald R. Viands, Réal Michaud, Annie Claessens, and E. Charles Brummer
doi: 10.3835/plantgenome2014.12.0090; Posted 15 Apr. 2015
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Characterization of Expression Patterns of Individual Members of Grapevine (Vitis vinifera L.) MicroRNA Families using miR-RACE
Xiangpeng Leng, Jinxiang Fang, Tariq Perraiz, Yu Li, Xiaomin Wang, Dan Liu, Xudong Zhu, Xiaopeng Li, and Jinggui Fang
doi: 10.3835/plantgenome2014.10.0069; Posted 7 Apr. 2015
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Genome Wide Association Mapping for Leaf Tip Necrosis and Pseudo Black Chaff in Relation to Durable Rust Resistance in Wheat
Philomin Juliana, Jessica E. Rutkoski, Jesse A. Poland, Ravi P. Singh, Sivasamy Murugasamy, Senthil Natesan, Hugues Barbier, and Mark E. Sorrells
doi: 10.3835/plantgenome2015.01.0002; Posted 7 Apr. 2015
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Genome-Wide Association Study of Agronomic Traits in Common Bean
Kelvin Kamfwa, Karen A. Cichy, and James D. Kelly
doi: 10.3835/plantgenome2014.09.0059; Posted 16 Mar. 2015
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High-density SNP Linkage Map of Lowland Switchgrass Using Genotyping by Sequencing
Jason D. Fiedler, Christina Lanzatella,  Miki Okada, Jerry Jenkins, Jeremy Schmutz, and Christian M. Tobias
doi: 10.3835/plantgenome2014.10.0065; Posted 16 Mar. 2015
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Association of nad7a Gene with Cytoplasmic Male Sterility in Pigeonpea (Cajanus  cajan)
Pallavi Sinha, K.B. Saxena, Rachit K. Saxena, Vikas K. Singh, V. Suryanarayana, C.V. Sameer Kumar, Mohan A.V.S. Katta, Aamir W. Khan and Rajeev K. Varshney
doi: 10.3835/plantgenome2014.11.0084; Posted 16 Mar. 2015
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Using RNA-seq and in silico Subtraction to Identify Resistance Gene Analog Markers for Lr16 in Wheat
Nicole Rezac Harrison, Allan K. Fritz, Jarret I. Glasscock, Sara Ahmed, David N. Messina, Paul St. Amand, and John P. Fellers
doi: 10.3835/plantgenome2014.08.0040; Posted 27 Feb. 2015
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Natural Antisense Transcripts Associated with Salinity Response in Alfalfa
O.A. Postnikova and L.G. Nemchinov
doi: 10.3835/plantgenome2014.09.0057; Posted 27 Feb. 2015
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Genome-wide Responses to Selection and Genetic Networks Underlying Submergence Tolerance in Rice (Oryza sativa L.)
Wensheng Wang, Binying Fu, Jauhar Ali, Jianlong Xu, Yongming Gao, Tianqing Zheng, Fan Zhang, and Zhikang Li
doi: 10.3835/plantgenome2014.10.0066; Posted 27 Feb. 2015
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A Long-read Transcriptome Assembly of Cotton (Gossypium hirsutum) and Intraspecific SNP Discovery
Hamid Ashrafi, Amanda M. Hulse-Kemp, Fei Wang, S. Samuel Yang, Xueying Guan, Don C. Jones, Marta Matvienko, Keithanne Mockaitis, Z. Jeffrey Chen, David M. Stelly, and Allen Van Deynze
doi: 10.3835/plantgenome2014.10.0068; Posted 27 Feb. 2015
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Marker Imputation Before Genomewide Selection in Biparental Maize Populations
Amy Jacobson, Lian Lian, Shengqiang Zhong, and Rex Bernardo
doi: 10.3835/plantgenome2014.10.0078; Posted 27 Feb. 2015
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Identification of a New Chromosomal Region Involved in the Genetic Control of Resistance to Anthracnose in Common Bean
Noemí Trabanco, Ana Campa, Juan José Ferreira
doi: 10.3835/plantgenome2014.10.0079; Posted 27 Feb. 2015
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Association Mapping for Fusarium Wilt Resistance in Chinese Asparagus Bean Germplasm
Xinyi Wu, Xiaohua Wu, Pei Xu, Baogen Wang, Zhongfu Lu, and Guojing Li
doi: 10.3835/plantgenome2014.11.0082; Posted 27 Feb. 2015
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A Cluster of Recently Inserted Transposable Elements Associated with siRNAs in Gossypium raimondii
Lei Gong, Rick E. Masonbrink, Corrinne E. Grover, Simon Renny-Byfield, and Jonathan F. Wendel
doi: 10.3835/plantgenome2014.11.0088; Posted 27 Feb. 2015
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Candidate Gene Identification of Flowering Time Genes in Cotton (Gossypium)
Corrinne E Grover, Joseph P Gallagher, and Jonathan F Wendel
doi: 10.3835/plantgenome2014.12.0098; Posted 27 Feb. 2015
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De Novo Assembly and Characterization of Tall fescue [Lolium arundinaceum (Schreb.) Darbysh.] Transcriptome under Water Stress
S.K. Talukder, P. Azhaguvel, S. Mukherjee, C.A. Young, T. Yuhong, N. Krom, and M.C. Saha
doi: 10.3835/plantgenome2014.09.0050; Posted 9 Feb. 2015
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Genetic Gain from Phenotypic and Genomic Selection for Quantitative Resistance to Stem Rust of Wheat
J. Rutkoski, R. P. Singh, J. Huerta-Espino, S. Bhavani, J. Poland, J.-L. Jannink, and M. E. Sorrells
doi: 10.3835/plantgenome2014.10.0074; Posted 9 Feb. 2015
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Discovery of Conservation and Diversification of miR171 Genes by Phylogenetic Analysis Based on Global Genomes
Xudong Zhu, Xiangpeng Leng, Xin Sun, Qian Mu, Baoju Wang, Xiaopeng Li, Chen Wang, and Jinggui Fang
doi: 10.3835/plantgenome2014.10.0076; Posted 9 Feb. 2015
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Genome-Wide Mapping of Spike-Related and Agronomic Traits in a Common Wheat Population Derived from a Supernumerary Spikelet (SS) Parent and an Elite Parent
Morgan Echeverry-Solarte, Ajay Kumar, Shahryar Kianian, Eder E. Mantovani, Phillip E. McClean, Edward L. Deckard, Elias Elias, Senay Simsek, Mohammed S. Alamri, Justin Hegstad, Blaine Schatz, and Mohamed Mergoum
doi: 10.3835/plantgenome2014.12.0089; Posted 9 Feb. 2015
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Genomic Characterization of Interspecific Hybrids and an Admixture Population Derived from Panicum amarum x P. virgatum
Christopher Heffelfinger, Adam P. Deresienski, Kimberly A. Nelson, Maria A. Moreno, Joel P Hague, Stephen L. Dellaporta, and Albert P. Kausch
doi: 10.3835/plantgenome2015.01.0001; Posted 9 Feb. 2015
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Marker-assisted Backcrossing (MABC) Using CMS-specific, SSR and ISSR markers to Develop an Elite CMS Line in Rice
Asadollah Ahmadikhah, Mehdi Mirarab, Mohammad Hadi Pahlevani, and Leila Nayyeripasand
doi: 10.3835/plantgenome2014.07.0031; Posted 20 Jan. 2015
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Comparative Transcriptional Profiling of Contrasting Genotypes of Rice (Oryza sativa L.) in Response to Arsenic Exposure Reveals Different Mechanisms of Stress Perception and Tolerance
Arti Rai, Archana Bhardwaj, Prashant Misra, Sumit K. Bag, Bijan Adhikari, Rudra D. Tripathi, Prabodh K. Trivedi, and Debasis Chakrabarty
doi: 10.3835/plantgenome2014.09.0054; Posted 20 Jan. 2015
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Genomic SSR Markers Reveal Patterns of Genetic Relatedness and Diversity in Sesame
Ay┼če Özgür Uncu, Visam Gultekin, Jens Allmer, Anne Frary, and Sami Doganlar
doi: 10.3835/plantgenome2014.11.0087; Posted 20 Jan. 2015
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Dissecting a QTL into Candidate Genes Highlighted the Key Role of Pectinestarases in Regulating the Ascorbic Acid Content in Tomato Fruit
Valentino Ruggieri, Adriana Sacco, Roberta Calafiore, Luigi Frusciante, and Amalia Barone
doi: 10.3835/plantgenome2014.08.0038; Posted 8 Jan. 2015
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Natural Variation in Synthesis and Catabolism Genes Influences Dhurrin Content in Sorghum (Sorghum bicolor L. Moench)
Chad M. Hayes, Gloria B. Burow, Patrick J. Brown, Carrie Thurber, Zhanguo Xin, and John J. Burke
doi: 10.3835/plantgenome2014.09.0048; Posted 8 Jan. 2015
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SimpleMap: A Pipeline to Streamline High Density Linkage Map Construction
Abdulqader Jighly, Reem Joukhadar, and Manickavelu Alagu
doi: 10.3835/plantgenome2014.09.0056; Posted 8 Jan. 2015
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Transcriptome Profiling of Rust Resistance in Switchgrass Using RNA-Seq Analysis
Desalegn D. Serba, Srinivasa Rao Uppalapati, Shreyartha Mukherjee, Nick Krom, Yuhong Tang, Kirankumar S. Mysore, and Malay C. Saha
doi: 10.3835/plantgenome2014.10.0075; Posted 8 Jan. 2015
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Genome-wide Mapping and Analysis of Grapevine MicroRNAs and Their Potential Target Genes
Songtao Jiu, Xudong Zhu, Jian Wang, Cheng Zhang, Qian Mu, Chen Wang, and Jinggui Fang
doi: 10.3835/plantgenome2014.12.0091; Posted 8 Jan. 2015
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