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51.
de Meneses Alessandra Cristina Lerin Lindomar Alberto Araújo Pedro Henrique Hermes Sayer Cláudia de Oliveira Débora 《Bioprocess and biosystems engineering》2019,42(10):1625-1634
Bioprocess and Biosystems Engineering - In this work, a fed-batch approach was adopted to overcome propionic acid lipase inactivation effects in the benzyl propionate direct esterification mediated... 相似文献
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Badr Benjelloun Frdric Boyer Ian Streeter Wahid Zamani Stefan Engelen Adriana Alberti Florian J. Alberto Mohamed BenBati Mustapha Ibnelbachyr Mouad Chentouf Abdelmajid Bechchari Hamid R. Rezaei Saeid Naderi Alessandra Stella Abdelkader Chikhi Laura Clarke James Kijas Paul Flicek Pierre Taberlet Franois Pompanon 《Molecular ecology resources》2019,19(6):1497-1515
Whole genome sequences (WGS) greatly increase our ability to precisely infer population genetic parameters, demographic processes, and selection signatures. However, WGS may still be not affordable for a representative number of individuals/populations. In this context, our goal was to assess the efficiency of several SNP genotyping strategies by testing their ability to accurately estimate parameters describing neutral diversity and to detect signatures of selection. We analysed 110 WGS at 12× coverage for four different species, i.e., sheep, goats and their wild counterparts. From these data we generated 946 data sets corresponding to random panels of 1K to 5M variants, commercial SNP chips and exome capture, for sample sizes of five to 48 individuals. We also extracted low‐coverage genome resequencing of 1×, 2× and 5× by randomly subsampling reads from the 12× resequencing data. Globally, 5K to 10K random variants were enough for an accurate estimation of genome diversity. Conversely, commercial panels and exome capture displayed strong ascertainment biases. Besides the characterization of neutral diversity, the detection of the signature of selection and the accurate estimation of linkage disequilibrium (LD) required high‐density panels of at least 1M variants. Finally, genotype likelihoods increased the quality of variant calling from low coverage resequencing but proportions of incorrect genotypes remained substantial, especially for heterozygote sites. Whole genome resequencing coverage of at least 5× appeared to be necessary for accurate assessment of genomic variations. These results have implications for studies seeking to deploy low‐density SNP collections or genome scans across genetically diverse populations/species showing similar genetic characteristics and patterns of LD decay for a wide variety of purposes. 相似文献
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Alessandra Vigilante Anna Laddach Nathalie Moens Ruta Meleckyte Andreas Leha Arsham Ghahramani Oliver J. Culley Annie Kathuria Chloe Hurling Alice Vickers Erika Wiseman Mukul Tewary Peter W. Zandstra Richard Durbin Franca Fraternali Oliver Stegle Ewan Birney Fiona M. Watt 《Cell reports》2019,26(8):2078-2087.e3
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Wang-Sattler R Blandin S Ning Y Blass C Dolo G Touré YT delle Torre A Lanzaro GC Steinmetz LM Kafatos FC Zheng L 《PloS one》2007,2(11):e1249
Background
Attempts over the last three decades to reconstruct the phylogenetic history of the Anopheles gambiae species complex have been important for developing better strategies to control malaria transmission.Methodology
We used fingerprint genotyping data from 414 field-collected female mosquitoes at 42 microsatellite loci to infer the evolutionary relationships of four species in the A. gambiae complex, the two major malaria vectors A. gambiae sensu stricto (A. gambiae s.s.) and A. arabiensis, as well as two minor vectors, A. merus and A. melas.Principal Findings
We identify six taxonomic units, including a clear separation of West and East Africa A. gambiae s.s. S molecular forms. We show that the phylogenetic relationships vary widely between different genomic regions, thus demonstrating the mosaic nature of the genome of these species. The two major malaria vectors are closely related and closer to A. merus than to A. melas at the genome-wide level, which is also true if only autosomes are considered. However, within the Xag inversion region of the X chromosome, the M and two S molecular forms are most similar to A. merus. Near the X centromere, outside the Xag region, the two S forms are highly dissimilar to the other taxa. Furthermore, our data suggest that the centromeric region of chromosome 3 is a strong discriminator between the major and minor malaria vectors.Conclusions
Although further studies are needed to elucidate the basis of the phylogenetic variation among the different regions of the genome, the preponderance of sympatric admixtures among taxa strongly favor introgression of different genomic regions between species, rather than lineage sorting of ancestral polymorphism, as a possible mechanism. 相似文献59.
Slate Mandy L. Matallana-Mejia Nicolas Aromin Alessandra Callaway Ragan M. 《Biological invasions》2022,24(10):3109-3118
Biological Invasions - Temporally dynamic resource supplies may alter or lead to fluctuations in competitive outcomes. Resource pulses have been theorized to promote incursion by exotic species... 相似文献
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Castagneri Daniele Vacchiano Giorgio Hacket-Pain Andrew DeRose R. Justin Klein Tamir Bottero Alessandra 《Ecosystems》2022,25(1):30-43
Ecosystems - Drought will increasingly threaten forest ecosystems worldwide. Understanding how competition influences tree growth response to drought is essential for forest management aiming at... 相似文献