Phylogeny of Falconidae and phylogeography of Peregrine Falcons

Ornis Hungarica, Journal Year: 2018, Volume and Issue: 26(2), P. 27 - 37

Published: Dec. 1, 2018

Abstract We first examine how falcons can be integrated into avian tree of life. Then we go one step further and investigate the position Peregrine Falcons in a comprehensive phylogeny (genus Falco ), which was reconstructed on basis DNA sequences. Whether 19 subspecies Falcon identified genetically is examined next step. Recently, question Falcon’s genetics Central Europe has become wider interest. Which present before collapse populations currently after various reintroduction projects? Evidence provided, that constitutes (natural) hybrid zone between F. p. brookei from Mediterranean peregrinus northern Europe.

Language: Английский

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De NovoPacBio long-read and phased avian genome assemblies correct and add to genes important in neuroscience research

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2017, Volume and Issue: unknown

Published: Jan. 28, 2017

Abstract Reference quality genomes are expected to provide a resource for studying gene structure and function. However, often genes of interest not completely or accurately assembled, leading unknown errors in analyses additional cloning efforts the correct sequences. A promising solution this problem is long-read sequencing. Here we tested PacBio-based sequencing diploid assembly potential improvements Sanger-based intermediate-read zebra finch reference Illumina-based short-read Anna’s hummingbird reference, two vocal learning avian species widely studied neuroscience genomics. With DNA same individuals used generate genomes, generated assemblies with FALCON-Unzip assembler, resulting contigs no gaps megabase range (N50s 5.4 7.7 Mb, respectively), representing 150-fold 200-fold over current references, respectively. These corrected resolved what discovered be misassemblies, including due erroneous sequences flanking gaps, complex repeat base call difficult sequence regions, inaccurate resolution allelic differences between haplotypes. We analyzed protein-coding specialized species, found numerous that completely, validated by single long genomic reads transcriptome reads. findings demonstrate, first time non-human impact higher quality, phased gap-less understanding

Language: Английский

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A high-quality genome and comparison of short- versus long-read transcriptome of the palaearctic duck Aythya fuligula (tufted duck)

GigaScience, Journal Year: 2021, Volume and Issue: 10(12)

Published: Dec. 1, 2021

Abstract Background The tufted duck is a non-model organism that experiences high mortality in highly pathogenic avian influenza outbreaks. It belongs to the same bird family (Anatidae) as mallard, one of best-studied natural hosts low-pathogenic viruses. Studies species are crucial disentangle role host response virus infection reservoir. Such endeavour requires high-quality genome assembly and transcriptome. Findings This study presents first high-quality, chromosome-level reference using Vertebrate Genomes Project pipeline. We sequenced RNA (complementary DNA) from brain, ileum, lung, ovary, spleen, testis Illumina short-read Pacific Biosciences long-read sequencing platforms, which were used for annotation. found 34 autosomes plus Z W sex chromosomes curated assembly, with 99.6% sequence assigned chromosomes. Functional annotation revealed 14,099 protein-coding genes generate 111,934 transcripts, implies mean 7.9 isoforms per gene. also identified 246 small families. Conclusions annotated contributes continuing research into infections Our findings comparison between transcriptomics contribute deeper understanding these competing options. In this study, both technologies complemented each other. expect be foundation further comparative evolutionary genomic studies, including many waterfowl relatives differing susceptibilities

Language: Английский

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Endocrine regulation of fueling by hyperphagia in migratory birds

Journal of Comparative Physiology A, Journal Year: 2017, Volume and Issue: 203(6-7), P. 439 - 445

Published: Feb. 17, 2017

Language: Английский

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High Genetic Diversity among Breeding Red-Backed Shrikes Lanius collurio in the Western Palearctic

Diversity, Journal Year: 2019, Volume and Issue: 11(3), P. 31 - 31

Published: Feb. 26, 2019

Revealing the genetic population structure in abundant avian species is crucial for understanding speciation, conservation, and evolutionary history. The Red-backed Shrike Lanius collurio, an iconic songbird renowned impaling its prey, widely distributed as a breeder across much of Europe, Asia Minor western Asia. However, recent decades, many populations have declined significantly, result habitat loss, hunting along migration routes, decrease arthropod food, climate change e.g., severe droughts Africa. Within this context, gene flow among different breeding becomes critical to ensure survival species, but we still lack overview on diversity species. In paper, analyzed mitochondrial cytochrome b (mtDNA) c oxidase subunit 1 132 Shrikes from entire range address knowledge gap. Our results revealed consistent 76 haplotypes Eurasian populations. Birds are clustered two major groups, with no clear geographical separation, direct consequence Pleistocene glaciations apparent lineage mixing refugia. This has led panmixia.

Language: Английский

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