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Zhuofeng Yu, Pinjing He, Liming Shao, Hua Zhang, Fan Lü
Since municipal solid waste (MSW) landfill harbours miscellaneous wastes, pollutants and microorganisms, it gradually becomes a huge potential reservoir for breeding antibiotic resistance genes (ARGs). The objective of this study was to determine the prevalence and diversity of ARGs associated with various mobile genetic elements (MGEs) in MSW landfill leachates. The relationship of ARGs with leachate characteristics was also studied to explore the influence of landfill age. Seven sulfonamides (sulfapyridine, sulfadiazine, sulfathiazole, sulfamethoxazole, sulfamerazine, sulfamethazine and sulfaquinoxaline), three encoded ARGs (sul-I, sul-II and sul-III) and four types of MGEs (plasmids, transposons, integrons and insertion sequences) were quantified in leachates with landfill ages ranging from 3 months-6 years...
October 18, 2016: Water Research
Julio Vargas, Vincenzo Landi, Amparo Martínez, Mayra Gómez, María Esperanza Camacho, Luz Ángela Álvarez, Lenin Aguirre, Juan Vicente Delgado
Macabea cattle are the only Bos taurus breed that have adapted to the wet tropical conditions of the Amazon. This breed has integrated into the culture of the indigenous Shuar-Asuar nations probably since its origins, being one of the few European zoogenetic resources assimilated by the deep-jungle Amazon communities. Despite its potential for local endogenous sustainable development, this breed is currently endangered. The present study used molecular genetics tools to investigate the within- and between-breeds diversity, in order to characterize the breed population, define its associations with other breeds, and infer its origin and evolution...
2016: PloS One
Nidhi Rawat, Michael O Pumphrey, Sixin Liu, Xiaofei Zhang, Vijay K Tiwari, Kaori Ando, Harold N Trick, William W Bockus, Eduard Akhunov, James A Anderson, Bikram S Gill
Fusarium head blight (FHB), caused by Fusarium graminearum, is a devastating disease of wheat and barley that leads to reduced yield and mycotoxin contamination of grain, making it unfit for human consumption. FHB is a global problem, with outbreaks in the United States, Canada, Europe, Asia and South America. In the United States alone, total direct and secondary economic losses from 1993 to 2001 owing to FHB were estimated at $7.67 billion. Fhb1 is the most consistently reported quantitative trait locus (QTL) for FHB resistance breeding...
October 24, 2016: Nature Genetics
María Muñoz-Amatriaín, Hamid Mirebrahim, Pei Xu, Steve I Wanamaker, MingCheng Luo, Hind Alhakami, Matthew Alpert, Ibrahim Atokple, Benoit Joseph Batieno, Ousmane Boukar, Serdar Bozdag, Ndiaga Cisse, Issa Drabo, Jeffrey D Ehlers, Andrew Farmer, Christian Fatokun, Yong Q Gu, Yi-Ning Guo, Bao-Lam Huynh, Scott A Jackson, Francis Kusi, Cynthia T Lawley, Mitchell R Lucas, Yaqin Ma, Michael P Timko, Jiajie Wu, Frank You, Philip A Roberts, Stefano Lonardi, Timothy J Close
Cowpea (Vigna unguiculata L. Walp.) is a legume crop that is resilient to hot and drought-prone climates, and a primary source of protein in sub-Saharan Africa and other parts of the developing world. However, genome resources for cowpea have lagged behind most other major crops. Here we describe foundational genome resources and their application to analysis of germplasm currently in use in West African breeding programs. Resources developed from the African cultivar IT97K-499-35 include a whole-genome shotgun (WGS) assembly, a bacterial artificial chromosome (BAC) physical map, and assembled sequences from 4,355 BACs...
October 24, 2016: Plant Journal: for Cell and Molecular Biology
Wei Zhou, Xin Wang, Dan Zhou, Yidan Ouyang, Jialing Yao
Increasing grain yield and improving grain quality are two important goals for rice breeding. A better understanding of the factors that contribute to the overall grain quantity and nutritional quality of rice will lay the foundation for developing new breeding strategies. RAG2 is a member of 14-16 kDa α-amylase/trypsin inhibitors in rice, which belong to the albumin of seed storage proteins. We found that RAG2 was specifically expressed in ripening seed and its transcription peak was between 14 and 21 days after flowering...
October 24, 2016: Plant Biotechnology Journal
Chang-Jie Jiang, Shoji Sugano, Akito Kaga, Sung Shin Lee, Takuma Sugimoto, Mami Takahashi, Masao Ishimoto
Stem and root rot disease caused by Phytophthora sojae is devastating to soybean crops worldwide. Developing host resistance to P. sojae, considered the most effective and stable means to control this disease, is partly hampered by limited germplasm resources. In this study, we first modified conventional methods for a P. sojae-resistance assay to a simpler and more cost-effective version in which the P. sojae-inoculum was mixed into the soil and the resistance was evaluated by survival rate (%) of soybean seedlings...
October 24, 2016: Phytopathology
Keiichi Mochida, Tetsuya Sakurai, Hikaru Seki, Takuhiro Yoshida, Kotaro Takahagi, Satoru Sawai, Hiroshi Uchiyama, Toshiya Muranaka, Kazuki Saito
Chinese liquorice/licorice (Glycyrrhiza uralensis) is a leguminous plant species whose roots and rhizomes have been widely used as a herbal medicine and natural sweetener. Whole-genome sequencing is essential for gene discovery studies and molecular breeding in liquorice. Here, we report a draft assembly of the approximately 379-Mb whole-genome sequence of strain 308-19 of G. uralensis; this assembly contains 34 445 predicted protein-coding genes. Comparative analyses suggested well-conserved genomic components and collinearity of gene loci (synteny) between the genome of liquorice and those of other legumes such as Medicago and chickpea...
October 24, 2016: Plant Journal: for Cell and Molecular Biology
L Ming, L Yi, R Sa, Z X Wang, Z Wang, R Ji
The Bactrian camel includes various domestic (Camelus bactrianus) and wild (Camelus ferus) breeds that are important for transportation and for their nutritional value. However, there is a lack of extensive information on their genetic diversity and phylogeographic structure. Here, we studied these parameters by examining an 809-bp mtDNA fragment from 113 individuals, representing 11 domestic breeds, one wild breed and two hybrid individuals. We found 15 different haplotypes, and the phylogenetic analysis suggests that domestic and wild Bactrian camels have two distinct lineages...
October 24, 2016: Animal Genetics
B N Keel, J W Keele, W M Snelling
Copy number variations (CNVs) are large insertions, deletions or duplications in the genome that vary between members of a species and are known to affect a wide variety of phenotypic traits. In this study, we identified CNVs in a population of bulls using low coverage next-generation sequence data. First, in order to determine a suitable strategy for CNV detection in our data, we compared the performance of three distinct CNV detection algorithms on benchmark CNV datasets and concluded that using the multiple sample read depth approach was the best method for identifying CNVs in our sequences...
October 24, 2016: Animal Genetics
Joanna Melonek, James D Stone, Ian Small
Hybrid seed production in rice relies on cytoplasmic male sterility (CMS) induced by specific mitochondrial proteins, whose deleterious effects are suppressed by nuclear Restorer of Fertility (RF) genes. The majority of RF proteins belong to a specific clade of the RNA-binding pentatricopeptide repeat protein family. We have characterised 'restorer-of-fertility-like' (RFL) sequences from 13 Oryza genomes and the Brachypodium distachyon genome. The majority of the RFL sequences are found in genomic clusters located at two or three chromosomal loci with only a minor proportion being present as isolated genes...
October 24, 2016: Scientific Reports
Zhongfeng Li, Lingxue Jiang, Yansong Ma, Zhongyan Wei, Huilong Hong, Zhangxiong Liu, Jinhui Lei, Ying Liu, Rongxia Guan, Yong Guo, Longguo Jin, Lijuan Zhang, Yinghui Li, Yulong Ren, Wei He, Ming Liu, Nang Myint Phyu Sin Htwe, Lin Liu, Bingfu Guo, Jian Song, Bing Tan, Guifeng Liu, Maiquan Li, Xianli Zhang, Bo Liu, Xuehui Shi, Sining Han, Sunan Hua, Fulai Zhou, Lili Yu, Yanfei Li, Shuang Wang, Jun Wang, Ruzhen Chang, Lijuan Qiu
Mutagenized populations have provided important materials for introducing variation and identifying gene function in plants. In this study, an ethyl methanesulfonate (EMS) -induced soybean (Glycine max) population, consisting of 21,600 independent M2 lines, was developed. Over one thousand M4 (5) families, with diverse abnormal phenotypes for seed composition, seed shape, plant morphology, and maturity that are stably expressed across different environments and generations were identified. Phenotypic analysis of the population led to the identification of a yellow pigmentation mutant, gyl, that displayed significantly decreased chlorophyll (Chl) content and abnormal chloroplast development...
October 24, 2016: Journal of Integrative Plant Biology
R F Godino, A I Fernández
Mx1 (Myxovirus (Influenza virus) resistance 1, interferon-inducible protein p78) gene has been implicated in the resistance to a wide range of RNA viruses including influenza A in several species such as Sus scrofa. In the present study a 28-bp deletion in exon 14 of the Mx1 gene has been identified in Iberian domestic pigs but not in other domestic breeds neither in wild boars. The mutation produces a frameshift giving a protein with 6 amino acid substitutions and the extension of the C-terminal region with additional 20 amino acids with respect to the wild type MX1 protein...
September 2016: Postdoc Journal: a Journal of Postdoctoral Research and Postdoctoral Affairs
Zhao Li, Guanghui Hu, Xiangfeng Liu, Yao Zhou, Yu Li, Xu Zhang, Xiaohui Yuan, Qian Zhang, Deguang Yang, Tianyu Wang, Zhiwu Zhang
Originating in a tropical climate, maize has faced great challenges as cultivation has expanded to the majority of the world's temperate zones. In these zones, frost and cold temperatures are major factors that prevent maize from reaching its full yield potential. Among 30 elite maize inbred lines adapted to northern China, we identified two lines of extreme, but opposite, freezing tolerance levels-highly tolerant and highly sensitive. During the seedling stage of these two lines, we used RNA-seq to measure changes in maize whole genome transcriptome before and after freezing treatment...
2016: Frontiers in Plant Science
Leonardo de Carvalho Oliveira, Juliana Monteiro de Almeida Rocha, Paula Pedreira Dos Reis, James Dietz
The advantages of living in a group include feeding benefits and/or predation avoidance, while the disadvantages are typically related to competition. One way to avoid competition while maintaining the benefits of living in a group is to form interspecific associations with species with relatively little dietary overlap. Here we report a stable association between a male golden-headed lion tamarin (GHLT), Leontopithecus chrysomelas, and a group of Wied's black-tufted-ear marmosets (WBTMs), Callithrix kuhlii...
October 22, 2016: Primates; Journal of Primatology
Alejandra R Maldonado, Miguel A Mora, José L Sericano
For many years, it has been hypothesized that Neotropical migrants breeding in the United States and Canada accumulate organochlorine pesticides (OCPs) while on their wintering grounds in Latin America. We investigated the seasonal accumulation of persistent organic pollutant (POPs) in migrant and resident passerines in Texas, Yucatán, and Costa Rica collected during the fall, winter, and spring from 2011 to 2013. A total of 153 birds were collected, and all contained detectable levels of polychlorinated biphenyls (PCBs), polybrominated diphenyl ethers (PBDEs), and OCPs with dichlorodiphenyldichloroethylene (DDE) being the most predominant pesticide...
October 22, 2016: Archives of Environmental Contamination and Toxicology
Huanhuan Li, Bo Jiang, Jingchang Wang, Yuqing Lu, Jinpeng Zhang, Cuili Pan, Xinming Yang, Xiuquan Li, Weihua Liu, Lihui Li
A physical map of Agropyron cristatum 2P chromosome was constructed for the first time and the novel powdery mildew resistance gene(s) from chromosome 2P was(were) also mapped. Agropyron cristatum (L.) Gaertn. (2n = 28, PPPP), a wild relative of common wheat, is highly resistant to powdery mildew. Previous studies showed that wheat-A. cristatum 2P disomic addition line II-9-3 displayed high resistance to powdery mildew, and the resistance was attributable to A. cristatum chromosome 2P. To utilize and physically map the powdery mildew resistance gene(s), 15 wheat-A...
October 22, 2016: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
Maria Serena Beato, Luca Tassoni, Adelaide Milani, Annalisa Salviato, Guido Di Martino, Monica Mion, Lebana Bonfanti, Isabella Monne, Simon James Watson, Alice Fusaro
In August 2012 repeated respiratory outbreaks caused by swine influenza A virus (swIAV) were registered for a whole year in a breeding farm in northeast Italy that supplied piglets for fattening. The virus, initially characterized in the farm, was a reassortant Eurasian avian-like H1N1 (H1avN1) genotype, containing a haemagglutinin segment derived from the pandemic H1N1 (A(H1N1)pdm09) lineage. To control infection, a vaccination program using vaccines against the A(H1N1)pdm09, human-like H1N2 (H1huN2), human-like H3N2 (H3N2), and H1avN1 viruses was implemented in sows in November 2013...
November 15, 2016: Veterinary Microbiology
Aline Girotto-Soares, João Fabio Soares, Alexey Leon Gomel Bogado, César Augusto Barbosa de Macedo, Lígia Mara Sandeski, João Luis Garcia, Odilon Vidotto
'Candidatus Mycoplasma haemobos' is a haemotropic mycoplasma that can produce various clinical signs in cattle, but abortive potential of the parasite is unknown, as well as the frequency of transplacental transmission in cattle. Thus, the objective of this work was to evaluate the frequency of detection of 'C. M. haemobos' in aborted fetuses and the blood of dairy cows. Blood samples of 22 dairy cows that aborted and pool tissues (brain, lung, heart and liver) of their respective aborted fetuses were tested by conventional PCR...
November 15, 2016: Veterinary Microbiology
Felix Lankester, Ahmed Lugelo, Dirk Werling, Nicholas Mnyambwa, Julius Keyyu, Rudovick Kazwala, Dawn Grant, Sarah Smith, Nevi Parameswaran, Sarah Cleaveland, George Russell, David Haig
Malignant catarrhal fever (MCF) is a fatal disease of cattle that, in East Africa, follows contact with wildebeest excreting alcelaphine herpesvirus 1 (AlHV-1). Recently an attenuated vaccine (atAlHV-1) was tested under experimental challenge on Friesian-Holstein (FH) cattle and gave a vaccine efficacy (VE) of approximately 90%. However testing under field conditions on an East African breed, the shorthorn zebu cross (SZC), gave a VE of 56% suggesting that FH and SZC cattle may respond differently to the vaccine...
November 15, 2016: Veterinary Microbiology
G Notarbartolo di Sciara, S Kotomatas
Mediterranean monk seals (Monachus monachus), amongst the most endangered marine mammals, are showing localised signs of recovery warranting their recent down-listing, from Critically Endangered to Endangered, on the International Union for the Conservation of Nature (IUCN) Red List. This, however, cannot be taken as a reason for complacency, as the species' condition is still very critical, having been extirpated from most of its historical range. Monk seals within the Mediterranean, a 'unit to conserve' separate from Atlantic conspecifics, were once widely distributed throughout the Mediterranean Sea, with their range also extending into the Sea of Marmara and the Black Sea...
2016: Advances in Marine Biology
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