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L Canfora, N Abu-Samra, M Tartanus, B H Łabanowska, A Benedetti, F Pinzari, E Malusà
The use of entomopathogenic fungi for biocontrol of plant pests is recently receiving an increased interest due to the need of reducing the impact of agricultural practices on the environment. Biocontrol efficacy could be improved by co-inoculation of different microorganisms. However, interactions between the fungal species can trigger or depress the biocontrol activity. Co-inoculation of two entomopathogenic fungi (Beauveria bassiana and B. brongniartii) was performed in vitro to evaluate the effects of their joint behaviour on a range of different carbon sources in comparison to single inoculation...
October 12, 2017: Scientific Reports
Kwanjai Pipatchartlearnwong, Akarapong Swatdipong, Supachai Vuttipongchaikij, Somsak Apisitwanich
BACKGROUND: Borassus flabellifer or Asian Palmyra palm is an important crop for local economies in the South and Southeast Asia for its fruit and palm sugar production. Archeological and historical evidence indicated the presence of this species in Southeast Asia dating back at least 1500 years. B. flabellifer is believed to be originated in Africa, spread to South Asia and introduced into Southeast Asia through commercial routes and dissemination of cultures, however, the nature of its invasion and settlement in Thailand is unclear...
October 12, 2017: BMC Genetics
Erbao Liu, Siyuan Zeng, Xiangong Chen, Xiaojing Dang, Lijun Liang, Hui Wang, Zhiyao Dong, Yang Liu, Delin Hong
BACKGROUND: Poor grain plumpness (GP) is one of the main constraints to reaching the yield potential of hybrid rice. RESULTS: In this study, the GP of 177 rice varieties was investigated in three locations across 2 years. By combining the genotype data of 261 simple sequence repeat (SSR) markers, association mapping was conducted to identify the marker-GP association loci. Among 31 marker-GP association loci detected in two or more environments and determined using general linear model (GLM) analyses, seven association loci were also detected using mixed linear model (MLM) analyses...
October 12, 2017: BMC Genetics
Jin-Hee Kim, Il Kyung Chung, Kyung-Min Kim
The Sweet potato, Ipomoea batatas (L.) Lam, is difficult to study in genetics and genomics because it is a hexaploid. The sweet potato study not have been performed domestically or internationally. In this study was performed to construct genetic map and quantitative trait loci (QTL) analysis. A total of 245 EST-SSR markers were developed, and the map was constructed by using 210 of those markers. The total map length was 1508.1 cM, and the mean distance between markers was 7.2 cM. Fifteen characteristics were investigated for QTLs analysis...
2017: PloS One
Yue Zhang, Xue Zhang, Yue-Hua Wang, Shi-Kang Shen
Transcriptome sequences generated by next-generation sequencing (NGS) technologies can be utilized to rapidly detect and characterize a large number of gene-based microsatellites from different plants. Rhododendron rex Lévl. is a perennial woody species from the family Ericaceae and an endangered plant with high ornamental value endemic to Southwestern China. Nevertheless, the genetic and genomic information of R. rex remain unknown. In this study, we performed transcriptome sequencing for R. rex leaf samples, and generated large transcript sequences for functional characterization and development gene-associated SSR markers...
2017: Frontiers in Plant Science
E Esra Okuyucu, Ayşe Dicle Turhanoğlu, Murat Guntel, Serkan Yılmazer, Nazan Savaş, Ayhan Mansuroğlu
OBJECTIVE: This study examined the effects of transcutaneous electrical nerve stimulation (TENS) on the sympathetic nerve system by sympathetic skin response test. METHODS: Fifty-five healthy volunteers received either: (i) 30minutes TENS (25 participants) (ii) 30minutes sham TENS (30 participants) and SSR test was performed pre- and post-TENS. The mean values of latency and peak-to-peak amplitude of five consecutive SSRs were calculated. RESULTS: A significant amplitude difference was found between TENS and sham TENS group both in right and left hand (p=0...
October 7, 2017: Journal of Clinical Neuroscience: Official Journal of the Neurosurgical Society of Australasia
Fakhriddin N Kushanov, Zabardast T Buriev, Shukhrat E Shermatov, Ozod S Turaev, Tokhir M Norov, Alan E Pepper, Sukumar Saha, Mauricio Ulloa, John Z Yu, Johnie N Jenkins, Abdusattor Abdukarimov, Ibrokhim Y Abdurakhmonov
Most wild and semi-wild species of the genus Gossypium are exhibit photoperiod-sensitive flowering. The wild germplasm cotton is a valuable source of genes for genetic improvement of modern cotton cultivars. A bi-parental cotton population segregating for photoperiodic flowering was developed by crossing a photoperiod insensitive irradiation mutant line with its pre-mutagenesis photoperiodic wild-type G. darwinii Watt genotype. Individuals from the F2 and F3 generations were grown with their parental lines and F1 hybrid progeny in the long day and short night summer condition (natural day-length) of Uzbekistan to evaluate photoperiod sensitivity, i...
2017: PloS One
Shuanghui Zhang, Yongxiang Liu, Xiang Li
Interferometric inverse synthetic aperture radar (InISAR) imaging for sparse-aperture (SA) data is still a challenge, because the similarity and matched degree between ISAR images from different channels are destroyed by the SA data. To deal with this problem, this paper proposes a novel SA-InISAR imaging method, which jointly reconstructs 2-dimensional (2-D) ISAR images from different channels through multiple response sparse Bayesian learning (M-SBL), a modification of sparse Bayesian learning (SBL), to achieve sparse recovery for multiple measurement vectors (MMV)...
October 10, 2017: Sensors
Hui Huang, En-Hua Xia, Hai-Bin Zhang, Qiu-Yang Yao, Li-Zhi Gao
Camellia sasanqua is one of the most famous horticultural plants in Camellia (Theaceae) due to its aesthetic appeal as landscape plant. Knowledge regarding the genetic basis of flowering time, floral aroma and color in C. sasanqua is limited, but is essential to breed new varieties with desired floral traits. Here, we described the de novo transcriptome of young leaves, flower buds and flowers of C. sasanqua. A total of 60,127 unigenes were functionally annotated based on the sequence similarity. After analysis, we found that two floral integrator genes, SOC1 and AP1, in flowering time pathway showed evidence of gene family expansion...
September 1, 2017: Plant Physiology and Biochemistry: PPB
Manmohan Pandey, Ravindra Kumar, Prachi Srivastava, Suyash Agarwal, Shreya Srivastava, N S Nagpure, J K Jena, Basdeo Kushwaha
Mining and characterization of SSR markers from whole genomes provide valuable information about biological significance of SSR distribution and also facilitate development of markers for genetic analysis. WGS-SSR Annotation Tool (WGSSAT) is a graphical user interface pipeline developed using Java Netbeans and Perl scripts which facilitates in simplifying the process of SSR mining and characterization. WGSSAT takes input in FASTA format and automates the prediction of genes, ncRNA, core genes, repeats and SSRs from whole genomes followed by mapping of the predicted SSRs onto a genome (classified according to genes, ncRNA, repeats, exonic, intronic and core gene region) along with primer identification and mining of cross-species markers...
September 16, 2017: Journal of Heredity
Elisa Lagostina, Francesco Dal Grande, Sieglinde Ott, Christian Printzen
PREMISE OF THE STUDY: Usnea antarctica and U. aurantiacoatra (Parmeliaceae) are common lichens in the maritime Antarctic. These species share the same habitats on King George Island (South Shetland Islands, Antarctica) and are distinguishable based on reproductive strategies. METHODS AND RESULTS: We developed 23 fungus-specific simple sequence repeat (SSR) markers that cross-amplify between the two species. We used a low-coverage genome-skimming approach on one sample of each species to identify SSR repeats in the two species...
September 2017: Applications in Plant Sciences
Liyan Xu, Fabing Duan, Xiao Gao, Derek Abbott, Mark D McDonnell
Suprathreshold stochastic resonance (SSR) is a distinct form of stochastic resonance, which occurs in multilevel parallel threshold arrays with no requirements on signal strength. In the generic SSR model, an optimal weighted decoding scheme shows its superiority in minimizing the mean square error (MSE). In this study, we extend the proposed optimal weighted decoding scheme to more general input characteristics by combining a Kalman filter and a least mean square (LMS) recursive algorithm, wherein the weighted coefficients can be adaptively adjusted so as to minimize the MSE without complete knowledge of input statistics...
September 2017: Royal Society Open Science
Sahil Mahfooz, Satyendra P Singh, Nishtha Mishra, Aradhana Mishra
The occurrence of Microsatellites (SSRs) has been witnessed in most of the fungal genomes however its abundance varies across species. In the present study, we analyzed the frequency of SSRs in the whole genome and transcripts of two phyto-pathogenic (Aspergillus niger and Aspergillus terreus) and compared them with two non-pathogenic (Aspergillus nidulans and Aspergillus oryzae) Aspergillus. Higher relative abundance and relative density of SSRs were observed in the whole genome and transcript sequences of the pathogenic Aspergillus when compared to the non-pathogenic...
2017: Frontiers in Microbiology
Prassan Choudhary, Prem Lal Kashyap, Sanjay Kumar Goswami, Hillol Chakdar, Alok Kumar Srivastava, Anil Kumar Saxena
Microsatellites or simple sequence repeats (SSRs) have been the most widely applied class of molecular markers used in genetic studies, having applications in genetic conservation, population studies, as well as diagnostics of fungi. Mining and analysis of SSRs of the whole genome sequence have been carried out in this study for the fungus Alternaria arborescens causing early blight of tomato and well known for producing mycotoxins like alternariol (AOH), alternariol monomethyl ether (AME), etc. A total of 4097 microsatellites were identified in A...
October 3, 2017: Interdisciplinary Sciences, Computational Life Sciences
X Q Fu, F X Yang, X K Lu, X G Wang, B X Yang, F J Liu, Y Liu, J Peng
Molecular identification of hybrid purity is difficult in regional trials of cotton varieties and hybrid trials. In particular, the molecular detection of hybrid purity has not yet been reported in the case of unknown parentage. In this study, we screened 5000 pairs of primers and chose 17 pairs of core simple sequence repeat (SSR) primers to determine the F1 purity of Han6402. The results showed that the purity based on SSR markers reached 100%. Twelve of the 17 pairs of primers exhibited co-dominant banding patterns, and 5 showed non-co-dominant banding patterns...
September 27, 2017: Genetics and Molecular Research: GMR
G R C Coelho, C Brondani, L V Hoffmann, P A M R Valdisser, T C O Borba, J A Mendonça, L A Rodrigues, I P P de Menezes
The objective of this study was to analyze the diversity and discrimination of high-performance Brazilian rice cultivars using microsatellite markers. Twenty-nine rice cultivars belonging to EMBRAPA Arroz e Feijão germplasm bank in Brazil were genotyped by 24 SSR markers to establish their structure and genetic discrimination. It was demonstrated that the analyzed germplasm of rice presents an expressive and significant genetic diversity with low heterogeneity among the cultivars. All 29 cultivars were differentiated genetically, and were organized into two groups related to their upland and irrigated cultivation systems...
September 21, 2017: Genetics and Molecular Research: GMR
S J Ma, K J Sa, T K Hong, J K Lee
In this study, 21 simple sequence repeat (SSR) markers were used to evaluate the genetic diversity and population structure among 77 Perilla accessions from high-latitude and middle-latitude areas of China. Ninety-five alleles were identified with an average of 4.52 alleles per locus. The average polymorphic information content (PIC) and genetic diversity values were 0.346 and 0.372, respectively. The level of genetic diversity and PIC value for cultivated accessions of Perilla frutescens var. frutescens from middle-latitude areas were higher than accessions from high-latitude areas...
September 21, 2017: Genetics and Molecular Research: GMR
Brandon D Pickett, Justin B Miller, Perry G Ridge
Motivation: One of the main challenges with bioinformatics software is that the size and complexity of datasets necessitate trading speed for accuracy, or completeness. To combat this problem of computational complexity, a plethora of heuristic algorithms have arisen that report a "good enough" solution to biological questions. However, in instances such as Simple Sequence Repeats (SSRs), a "good enough" solution may not accurately portray results in population genetics, phylogenetics, and forensics, which require accurate SSRs to calculate intra- and inter-species interactions...
August 30, 2017: Bioinformatics
Maninder Sandhu, V Sureshkumar, Chandra Prakash, Rekha Dixit, Amolkumar U Solanke, Tilak Raj Sharma, Trilochan Mohapatra, Amitha Mithra S V
BACKGROUND: Genome-wide microarray has enabled development of robust databases for functional genomics studies in rice. However, such databases do not directly cater to the needs of breeders. Here, we have attempted to develop a web interface which combines the information from functional genomic studies across different genetic backgrounds with DNA markers so that they can be readily deployed in crop improvement. In the current version of the database, we have included drought and salinity stress studies since these two are the major abiotic stresses in rice...
September 30, 2017: BMC Bioinformatics
Nicolò Margaritella, Laura Mendozzi, Massimo Garegnani, Elisabetta Gilardi, Raffaello Nemni, Luigi Pugnetti
The usefulness of sympathetic skin responses (SSR) in multiple sclerosis (MS) has been advocated by several studies in the last 20 years; however, due to a great heterogeneity of findings, a comprehensive meta-analysis of case-control studies is in order to pinpoint consistencies and investigate the causes of discrepancies. We searched MEDLINE, EMBASE and Cochrane databases for case-control studies comparing SSR absence frequency and latency between patients with MS and healthy controls. Thirteen eligible studies including 415 MS patients and 331 healthy controls were identified...
September 29, 2017: Neurological Sciences
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