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  1. During fresh fruit consumption, sensory texture is one factor that affects the organoleptic qualities. Chemical components of plant cell walls, including pectin, cellulose, hemicellulose and lignin, play centr...

    Authors: Xun Wang, Lijin Lin, Yi Tang, Hui Xia, Xiancong Zhang, Maolan Yue, Xia Qiu, Ke Xu and Zhihui Wang
    Citation: BMC Genomics 2018 19:280
    Content type: Research article Published on:

  2. Pyrenophora tritici-repentis (Ptr) is a necrotrophic fungal pathogen that causes the major wheat disease, tan spot. We set out to provide essential genomics-based resources in order to better understand the patho...

    Authors: Paula Moolhuijzen, Pao Theen See, James K. Hane, Gongjun Shi, Zhaohui Liu, Richard P. Oliver and Caroline S. Moffat
    Citation: BMC Genomics 2018 19:279
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2018 19:673

  3. Japanese cedar (Cryptomeria japonica) is an important tree for Japanese forestry. Male-sterile marker development in Japanese cedar would facilitate selection of male-sterile plus trees, addressing the widespread...

    Authors: Kentaro Mishima, Tomonori Hirao, Miyoko Tsubomura, Miho Tamura, Manabu Kurita, Mine Nose, So Hanaoka, Makoto Takahashi and Atsushi Watanabe
    Citation: BMC Genomics 2018 19:277
    Content type: Research article Published on:

  4. Circular RNAs (circRNAs) are predominantly derived from protein coding genes, and some can act as microRNA sponges or transcriptional regulators. Changes in circRNA levels have been identified during human dev...

    Authors: Osagie G. Izuogu, Abd A. Alhasan, Carla Mellough, Joseph Collin, Richard Gallon, Jonathon Hyslop, Francesco K. Mastrorosa, Ingrid Ehrmann, Majlinda Lako, David J. Elliott, Mauro Santibanez-Koref and Michael S. Jackson
    Citation: BMC Genomics 2018 19:276
    Content type: Research article Published on:

  5. Cryptophytes are an ecologically important group of algae comprised of phototrophic, heterotrophic and osmotrophic species. This lineage is of great interest to evolutionary biologists because their plastids a...

    Authors: Jong Im Kim, Hwan Su Yoon, Gangman Yi, Woongghi Shin and John M. Archibald
    Citation: BMC Genomics 2018 19:275
    Content type: Research article Published on:

  6. In shotgun metagenomics, microbial communities are studied through direct sequencing of DNA without any prior cultivation. By comparing gene abundances estimated from the generated sequencing reads, functional...

    Authors: Mariana Buongermino Pereira, Mikael Wallroth, Viktor Jonsson and Erik Kristiansson
    Citation: BMC Genomics 2018 19:274
    Content type: Research article Published on:

  7. Genetic improvement of root system architecture is a promising approach for improved uptake of water and mineral nutrients distributed unevenly in the soil. To identify genomic regions associated with the leng...

    Authors: Yusaku Uga, Ithipong Assaranurak, Yuka Kitomi, Brandon G. Larson, Eric J. Craft, Jon E. Shaff, Susan R. McCouch and Leon V. Kochian
    Citation: BMC Genomics 2018 19:273
    Content type: Research article Published on:

  8. Guayule (Parthenium argentatum A. Gray) is a rubber-producing desert shrub native to Mexico and the United States. Guayule represents an alternative to Hevea brasiliensis as a source for commercial natural rubber...

    Authors: José A. Valdes Franco, Yi Wang, Naxin Huo, Grisel Ponciano, Howard A. Colvin, Colleen M. McMahan, Yong Q. Gu and William R. Belknap
    Citation: BMC Genomics 2018 19:271
    Content type: Research article Published on:

  10. The soil dwelling saprotrophic non-pathogenic fungus Fusarium venenatum, routinely used in the commercial fermentation industry, is phylogenetically closely related to the globally important cereal and non-cereal...

    Authors: Robert King, Neil Andrew Brown, Martin Urban and Kim E. Hammond-Kosack
    Citation: BMC Genomics 2018 19:269
    Content type: Research article Published on:

  11. After publication of the original article [1] the authors noted that the key displayed in Figure 1a was incorrect, as the PMA and HgCl2 conditions had been switched.

    Authors: Stephen P. LaVoie and Anne O. Summers
    Citation: BMC Genomics 2018 19:268
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2018 19:52

  12. The characterization of genomic or epigenomic variation in human and animal models could provide important insight into pathophysiological mechanisms of various diseases, and lead to new developments in diseas...

    Authors: Ja-Rang Lee, Dong-Sung Ryu, Sang-Je Park, Se-Hee Choe, Hyeon-Mu Cho, Sang-Rae Lee, Sun-Uk Kim, Young-Hyun Kim and Jae-Won Huh
    Citation: BMC Genomics 2018 19:267
    Content type: Methodology article Published on:

  13. Species of the genus Halomonas are salt-tolerant organisms that have a versatile metabolism and can degrade a variety of xenobiotic compounds, utilizing them as their sole carbon source. In this study, we examine...

    Authors: Ana Florencia Gasperotti, María Victoria Revuelta, Claudia Alicia Studdert and María Karina Herrera Seitz
    Citation: BMC Genomics 2018 19:266
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2018 19:442

  14. Most phytophagous insects have morphological, behavioral and physiological adaptations allowing them to specialize on one or a few plant species. Identifying the mechanisms involved in host plant specializatio...

    Authors: M. Orsucci, P. Audiot, F. Dorkeld, A. Pommier, M. Vabre, B. Gschloessl, S. Rialle, D. Severac, D. Bourguet and R. Streiff
    Citation: BMC Genomics 2018 19:265
    Content type: Research article Published on:

  15. Mitochondrial genome (mt-genome) data can potentially return artefactual relationships in the higher-level phylogenetic inference of insects due to the biases of accelerated substitution rates and compositiona...

    Authors: Huanhuan Yang, Teng Li, Kai Dang and Wenjun Bu
    Citation: BMC Genomics 2018 19:264
    Content type: Research article Published on:

  16. Next generation sequencing (NGS) has become a common technology for clinical genetic tests. The quality of NGS calls varies widely and is influenced by features like reference sequence characteristics, read de...

    Authors: Jeroen van den Akker, Gilad Mishne, Anjali D. Zimmer and Alicia Y. Zhou
    Citation: BMC Genomics 2018 19:263
    Content type: Methodology article Published on:

  18. Upon publication of the original article [1], the authors had flagged that Fig. 1 had been published twice, as both Fig. 1 and Additional file 3.

    Authors: Colleen P. MacMillan, Hannah Birke, Aaron Chuah, Elizabeth Brill, Yukiko Tsuji, John Ralph, Elizabeth S. Dennis, Danny Llewellyn and Filomena A. Pettolino
    Citation: BMC Genomics 2018 19:261
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2017 18:539

  19. Postharvest seed coat darkening in pinto bean is an undesirable trait resulting in a loss in the economic value of the crop. The extent of darkening varies between the bean cultivars and their storage conditions.

    Authors: Kishor Duwadi, Ryan S. Austin, Hemanta R. Mainali, Kirstin Bett, Frédéric Marsolais and Sangeeta Dhaubhadel
    Citation: BMC Genomics 2018 19:260
    Content type: Research article Published on:

  20. Many cyanobacteria are capable of fixing atmospheric nitrogen, playing a crucial role in biogeochemical cycling. Little is known about freshwater unicellular cyanobacteria Synechococcus spp. at the genomic level,...

    Authors: Andrea Di Cesare, Pedro J. Cabello-Yeves, Nathan A. M. Chrismas, Patricia Sánchez-Baracaldo, Michaela M. Salcher and Cristiana Callieri
    Citation: BMC Genomics 2018 19:259
    Content type: Research article Published on:

  21. Prolongation of superstimulatory treatment appears to be associated with a greater superovulatory response and with greater oocyte maturation in cattle. A genome-wide bovine oligo-microarray was used to compar...

    Authors: F. C. F. Dias, M. I. R. Khan, M. A. Sirard, G. P. Adams and J. Singh
    Citation: BMC Genomics 2018 19:258
    Content type: Research article Published on:

  22. Most published genome sequences are drafts, and most are dominated by computational gene prediction. Draft genomes typically incorporate considerable sequence data that are not assigned to chromosomes, and pre...

    Authors: Sarah M. Pilkington, Ross Crowhurst, Elena Hilario, Simona Nardozza, Lena Fraser, Yongyan Peng, Kularajathevan Gunaseelan, Robert Simpson, Jibran Tahir, Simon C. Deroles, Kerry Templeton, Zhiwei Luo, Marcus Davy, Canhong Cheng, Mark McNeilage, Davide Scaglione…
    Citation: BMC Genomics 2018 19:257
    Content type: Research article Published on:

  23. GC-Biased Gene Conversion (gBGC) is one of the important theories put forward to explain profound long-range non-randomness in nucleotide compositions along mammalian chromosomes. Nucleotide changes due to gBG...

    Authors: Rajib Dutta, Arnab Saha-Mandal, Xi Cheng, Shuhao Qiu, Jasmine Serpen, Larisa Fedorova and Alexei Fedorov
    Citation: BMC Genomics 2018 19:256
    Content type: Research article Published on:

  24. Brassica crops are cultivated widely for human consumption and animal feed purposes, and oilseed rape/canola (Brassica napus and rapa) is the second most important oilseed worldwide. Because of its natural divers...

    Authors: Zakir Hossain, Bhinu V.-S. Pillai, Margaret Y. Gruber, Min Yu, Lisa Amyot and Abdelali Hannoufa
    Citation: BMC Genomics 2018 19:255
    Content type: Research article Published on:

  26. It has been suggested that the high phospholipid (PL) requirement in Atlantic salmon (Salmo salar) fry is due to insufficient intestinal de-novo synthesis causing low lipoprotein (LP) production and reduced trans...

    Authors: Yang Jin, Rolf Erik Olsen, Mari-Ann Østensen, Gareth Benjamin Gillard, Sven Arild Korsvoll, Nina Santi, Arne Bjørke Gjuvsland, Jon Olav Vik, Jacob Seilø Torgersen, Simen Rød Sandve and Yngvar Olsen
    Citation: BMC Genomics 2018 19:253
    Content type: Research article Published on:

  27. Pyropia yezoensis, a marine red alga, is an ideal research model for studying the mechanisms of abiotic stress tolerance in intertidal seaweed. Real-time quantitative polymerase chain reaction (RT-qPCR) is the mo...

    Authors: Dong Gao, Fanna Kong, Peipei Sun, Guiqi Bi and Yunxiang Mao
    Citation: BMC Genomics 2018 19:251
    Content type: Research article Published on:

  28. Bread wheat has a large complex genome that makes whole genome resequencing costly. Therefore, genome complexity reduction techniques such as sequence capture make re-sequencing cost effective. With a high-qua...

    Authors: Lisa Olohan, Laura-Jayne Gardiner, Anita Lucaci, Burkhard Steuernagel, Brande Wulff, John Kenny, Neil Hall and Anthony Hall
    Citation: BMC Genomics 2018 19:250
    Content type: Methodology article Published on:

  29. The intracerebroventricular injection of visfatin increases feed intake. However, little is known about the molecular mechanism in chicks. This study was conducted to assess the effect of visfatin on the feedi...

    Authors: Zhuanjian Li, Xuelian Liu, Panpan Zhang, Ruili Han, Guirong Sun, Ruirui Jiang, Yanbin Wang, Xiaojun Liu, Wenya Li, Xiangtao Kang and Yadong Tian
    Citation: BMC Genomics 2018 19:249
    Content type: Research article Published on:

  30. The major intrinsic protein (MIP) family is a family of proteins, including aquaporins, which facilitate water and small molecule transport across plasma membranes. In plants, MIPs function in a huge variety o...

    Authors: Darren Chern Jan Wong, Li Zhang, Isabelle Merlin, Simone D. Castellarin and Gregory A. Gambetta
    Citation: BMC Genomics 2018 19:248
    Content type: Research article Published on:

  31. Coxiella burnetii is a Gram-negative gammaproteobacterium and zoonotic agent of Q fever. C. burnetii’s genome contains an abundance of pseudogenes and numerous selfish genetic elements. MITEs (miniature inverted-...

    Authors: Shaun Wachter, Rahul Raghavan, Jenny Wachter and Michael F. Minnick
    Citation: BMC Genomics 2018 19:247
    Content type: Research article Published on:

  32. Glucose plays a key role as an energy source in most mammals, but its importance in fish appears to be limited that so far seemed to belong to diabetic humans only. Several laboratories worldwide have made imp...

    Authors: Yuru Zhang, Chaobin Qin, Liping Yang, Ronghua Lu, Xiaoyan Zhao and Guoxing Nie
    Citation: BMC Genomics 2018 19:246
    Content type: Research article Published on:

  33. Upon publication of the original article [1], the authors had flagged that there was an error in Fig. 1c, as the key in this figure was displaying incorrectly. The colours had not displayed in the key in the f...

    Authors: Nora Hohmann and Marcus A. Koch
    Citation: BMC Genomics 2018 19:245
    Content type: Correction Published on:

    The original article was published in BMC Genomics 2017 18:810

  34. Striped bass (Morone saxatilis) spermatozoa are used to fertilize in vitro the eggs of white bass (M. chrysops) to produce the preferred hybrid for the striped bass aquaculture industry. Currently, only one sourc...

    Authors: L. Curry Woods III, Yaokun Li, Yi Ding, Jianan Liu, Benjamin J. Reading, S. Adam Fuller and Jiuzhou Song
    Citation: BMC Genomics 2018 19:244
    Content type: Research article Published on:

  35. The potential of circulating miRNAs as biomarkers of tissue function, both in health and disease, has been extensively demonstrated in humans. In addition, circulating miRNA biomarkers offer significant potent...

    Authors: Jason Ioannidis and F. Xavier Donadeu
    Citation: BMC Genomics 2018 19:243
    Content type: Research article Published on:

  36. There is a worldwide interest for sustainable and environmentally-friendly ways to produce fuels and chemicals from renewable resources. Among them, the production of acetone, butanol and ethanol (ABE) or Isop...

    Authors: Hadrien Máté de Gérando, François Wasels, Angélique Bisson, Benjamin Clement, Frédérique Bidard, Etienne Jourdier, Ana María López-Contreras and Nicolas Lopes Ferreira
    Citation: BMC Genomics 2018 19:242
    Content type: Research article Published on:

    The Correction to this article has been published in BMC Genomics 2018 19:423

  37. MicroRNAs (miRNAs) are short, non-coding RNAs that regulate gene expression at the post-transcriptional level and play a key role in the control of innate and adaptive immune responses. For a subclinical infec...

    Authors: Anna Monika Lewandowska-Sabat, Silje Furre Hansen, Trygve Roger Solberg, Olav Østerås, Bjørg Heringstad, Preben Boysen and Ingrid Olsaker
    Citation: BMC Genomics 2018 19:241
    Content type: Research article Published on:

  38. Increased availability of genome assemblies for non-model organisms has resulted in invaluable biological and genomic insight into numerous vertebrates, including teleosts. Sequencing of the Atlantic cod (Gadus m...

    Authors: Ole K. Tørresen, Marine S. O. Brieuc, Monica H. Solbakken, Elin Sørhus, Alexander J. Nederbragt, Kjetill S. Jakobsen, Sonnich Meier, Rolf B. Edvardsen and Sissel Jentoft
    Citation: BMC Genomics 2018 19:240
    Content type: Research article Published on:

  39. Pathogen perception by plants is mediated by plasma membrane-localized immune receptors that have varied extracellular domains. Lectin receptor kinases (LecRKs) are among these receptors and are subdivided int...

    Authors: Marcella A. Teixeira, Alex Rajewski, Jiangman He, Olenka G. Castaneda, Amy Litt and Isgouhi Kaloshian
    Citation: BMC Genomics 2018 19:239
    Content type: Research article Published on:

  40. A strong focus of the post-genomic era is mining of the non-coding regulatory genome in order to unravel the function of regulatory elements that coordinate gene expression (Nat 489:57–74, 2012; Nat 507:462–70...

    Authors: Louis T. Dang, Markus Tondl, Man Ho H. Chiu, Jerico Revote, Benedict Paten, Vincent Tano, Alex Tokolyi, Florence Besse, Greg Quaife-Ryan, Helen Cumming, Mark J. Drvodelic, Michael P. Eichenlaub, Jeannette C. Hallab, Julian S. Stolper, Fernando J. Rossello, Marie A. Bogoyevitch…
    Citation: BMC Genomics 2018 19:238
    Content type: Software Published on:

  41. There are an exceedingly large number of sequence variants discovered through whole genome sequencing in most populations, including cattle. Deciphering which of these affect complex traits is a major challeng...

    Authors: Lambros T. Koufariotis, Yi-Ping Phoebe Chen, Paul Stothard and Ben J. Hayes
    Citation: BMC Genomics 2018 19:237
    Content type: Research article Published on:

  42. Essential oil (EO) dietary supplementation is a new strategy to improve animal health. EO compounds have antiparasitic, antimicrobial, antiviral, antimycotic, antioxidant and anti-inflammatory proprieties. Nut...

    Authors: Marcella Sabino, Victor Adriano Okstoft Carmelo, Gianluca Mazzoni, Katia Cappelli, Stefano Capomaccio, Paolo Ajmone-Marsan, Andrea Verini-Supplizi, Massimo Trabalza-Marinucci and Haja N. Kadarmideen
    Citation: BMC Genomics 2018 19:236
    Content type: Research article Published on:

  43. Epilithic sister genera Oresitrophe and Mukdenia (Saxifragaceae) have an epilithic habitat (rocky slopes) and a parapatric distribution in East Asia, which makes them an ideal model for a more comprehensive under...

    Authors: Luxian Liu, Yuewen Wang, Peizi He, Pan Li, Joongku Lee, Douglas E. Soltis and Chengxin Fu
    Citation: BMC Genomics 2018 19:235
    Content type: Research article Published on:

  44. High-throughput sequencing data are dramatically increasing in volume. Thus, there is urgent need for efficient tools to perform fast and integrative analysis of multiple data types. Enriched heatmap is a spec...

    Authors: Zuguang Gu, Roland Eils, Matthias Schlesner and Naveed Ishaque
    Citation: BMC Genomics 2018 19:234
    Content type: Software Published on:

  45. Management requires a robust understanding of between- and within-species genetic variability, however such data are still lacking in many species. For example, although multiple population genetics studies of...

    Authors: Jacqueline M. Doyle, Douglas A. Bell, Peter H. Bloom, Gavin Emmons, Amy Fesnock, Todd E. Katzner, Larry LaPré, Kolbe Leonard, Phillip SanMiguel, Rick Westerman and J. Andrew DeWoody
    Citation: BMC Genomics 2018 19:233
    Content type: Research article Published on:

  46. Sugarcane bagasse has been proposed as a lignocellulosic residue for second-generation ethanol (2G) produced by breaking down biomass into fermentable sugars. The enzymatic cocktails for biomass degradation ar...

    Authors: Paula Fagundes de Gouvêa, Aline Vianna Bernardi, Luis Eduardo Gerolamo, Emerson de Souza Santos, Diego Mauricio Riaño-Pachón, Sergio Akira Uyemura and Taisa Magnani Dinamarco
    Citation: BMC Genomics 2018 19:232
    Content type: Research article Published on:

  47. The ability to imitate the vocalizations of other organisms, a trait known as vocal learning, is shared by only a few organisms, including humans, where it subserves the acquisition of speech and language, and...

    Authors: Peter V. Lovell, Nicole A. Huizinga, Samantha R. Friedrich, Morgan Wirthlin and Claudio V. Mello
    Citation: BMC Genomics 2018 19:231
    Content type: Research article Published on:

  48. A high-density genetic linkage map is essential for QTL fine mapping, comparative genome analysis, identification of candidate genes and marker-assisted selection for economic traits in aquaculture species. Th...

    Authors: Xiu Feng, Xiaomu Yu, Beide Fu, Xinhua Wang, Haiyang Liu, Meixia Pang and Jingou Tong
    Citation: BMC Genomics 2018 19:230
    Content type: Research article Published on:

  49. In recent years, epigenetics has gained a central role in the understanding of the process of natural selection. It is now clear how environmental impacts on the methylome could promote methylation variability...

    Authors: Domenico Palumbo, Ornella Affinito, Antonella Monticelli and Sergio Cocozza
    Citation: BMC Genomics 2018 19:229
    Content type: Research article Published on:

  50. Trypanosoma brucei brucei, the parasite causing Nagana in domestic animals, is closely related to the parasites causing sleeping sickness, but does not infect humans. In addition to its importance as a pathogen, ...

    Authors: Arunasalam Naguleswaran, Nicholas Doiron and Isabel Roditi
    Citation: BMC Genomics 2018 19:227
    Content type: Research article Published on:

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BMC Genomics

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