The 5 references with contexts in paper N. Zinyakov G., Ye. Ovchinnikova V., S. Lazareva P., A. Kozlov A., I. Chvalas A. (2018) “IMPLEMENTATION OF 454 LIFE SCIENCES TECHNOLOGY LABORATORY PRACTICES” / spz:neicon:veterinary:y:2015:i:1:p:40-44

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Genetic analysis of fowl adenovirus isolate «Krasnodar 2009» / О. S. Osipova, N. G. Zinyakov, I. A.Chvala, V. V. Drygin // Vestnik Veterinarii. — 2014. — No 3. — P. 33–37.
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    It should be noted that despite adenoviruses are widely spread infectious agents today only some proteins of avian adenoviruses have been studied and characterized. «Krasnodar 2009» isolate was used in this investigation. The choice was conditioned by the results of previous work
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    . Analysis of fiber-1 and fiber-2 nucleotide sequences demonstrated difference between the recovered isolate from known strains including KR95 reference strain. Genetic differences are conditioned by point mutations (1,4% difference) as well as structural mutations (1,2%). 30% of point mutations are meaningful (0,36% of the general difference level).

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Ovchinnikova Ye. V. Molecular and biological properties of IBV isolates detected in Russia in 2005–2011: thesis. ... candidate of science (Biology). — Vladimir, 2012. — 116 p.
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    Changes in IBV genome result from point mutation accumulation, insertions, deletions and recombination. Recombination results from infecting one cell with different virus strains. Herewith, “daughter” virus can have fragments of parent virus genomes of different genotypes including vaccine strains
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    . IBV27-11 isolate of IBV was chosen for full genome sequencing as due to results of nucleotide sequencing analysis a recombination was detected in S1 gene site [3]. 4542 reads were used in full genome analysis from which a 27 577 b.p. sequence was assembled.

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    Herewith, “daughter” virus can have fragments of parent virus genomes of different genotypes including vaccine strains [3]. IBV27-11 isolate of IBV was chosen for full genome sequencing as due to results of nucleotide sequencing analysis a recombination was detected in S1 gene site
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    . 4542 reads were used in full genome analysis from which a 27 577 b.p. sequence was assembled. Analysis of obtained nucleotide sequence using RDP programme made it possible to detect a genome mosaic structure with five recombination events (Fig. 1).

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Adair B. M., Fitzgerald S. D. Group 1 adenovirus infections // Diseases of Poultry / ed. Y. M. Saif, A. M. Fadly, J. R. Glisson [et al.]. — 12th ed. — Ames, Iowa, — 2008. — P. 252–266.
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    Avian adenovirus is a widely spread infectious agent belonging to Adenoviridae family, Aviadenovirus genus. «IBH»-inclusion body hepatitis and «HHS»-hepatitishydropericardium syndrome are the most popular avian diseases caused by adenoviruses and characterized by specific pathological signs
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    . It should be noted that despite adenoviruses are widely spread infectious agents today only some proteins of avian adenoviruses have been studied and characterized. «Krasnodar 2009» isolate was used in this investigation.

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Metagenomic analysis of the viromes of three North American bat species: viral diversity among different bat species that share a common habitat / E. F. Donaldson, A. N. Haskew, J. E. Gates [et al.] // J. Virol. — 2010. — Vol. 84. — P. 13004–13018.
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    Combination of new methods is also called sequencing of the second generation or Next Generation Sequencing (NGS). NGS application field includes genome-wide sequencing, target sequencing, trancriptome analysis and metagenomic tests
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    . NGStechniques enable sequencing without designed primers due to random DNA fragmentation and sequencing of obtained library and have considerable advantages for investigation of variable and poorly studied agents.

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Sequencing viral genomes from a single isolated plaque / J. DePew, B. Zhou, J. M. McCorrison [et al.] // J. Virol. — 2013. — Vol. 10 (181). — doi: 10.1186/1743-422X10-181. among studied proteins (genes of proteins fiber-1, fiber-2, penton, DNA-polymerase). During analysis of obtained data for a genome region containing repeated genetic motifs discrepancies in obtained results were detected. In particular, in case of mapping to a reference sequence in primary nucleotide and deduced amino acid sequence different single substitutions were detected. Also no 60 b.p. insertion was observed. (Fig. 2). Evidently, these discrepancies are conditioned by another algorithm of data processing used by GS Reference Mapper software. It should be noted that visualization of obtained
Total in-text references: 1
  1. In-text reference with the coordinate start=6804
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    Combination of new methods is also called sequencing of the second generation or Next Generation Sequencing (NGS). NGS application field includes genome-wide sequencing, target sequencing, trancriptome analysis and metagenomic tests
    Exact
    [7, 8]
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    . NGStechniques enable sequencing without designed primers due to random DNA fragmentation and sequencing of obtained library and have considerable advantages for investigation of variable and poorly studied agents.