Classification of <scp><i>S</i></scp><i>treptococcus thermophilus</i> Phages Originating from <scp>T</scp>urkey

Acar-Soykut, Esra; Tunail, Nezihe

doi:10.1111/jfs.12226

Cited by 4 publications

(1 citation statement)

References 25 publications

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“…Bu faj, kas›lmayan uzun kuyru¤u ve ikosahedral kapsid yap›s› nedeniyle Bradley s›n›flamas› B grubuna dahil edilmifltir (24). EcoRI, EcoRV, PvuII ve HindIII gibi restriksiyon enzimleri ile kesim flablonlar› ç›kar›lan 231-X10 faj›n›n DNA büyüklü¤ünün yaklafl›k 40000-45000 baz aras›nda olabilece¤i tespit edilmifltir (25). Bu faja ait yaklafl›k 20135 bazl›k bölge, 454 FLX sekans belirleme sistemi taraf›ndan okunmufl ve birlefltirilmifltir (28).…”

Section: Sonuç Ve Tartişmaunclassified

Streptococcus Thermophilus 231-X10 Fajinin Kismi̇ Genomi̇k Karakteri̇zasyonu

Acar-Soykut¹

2017

GIDA

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ÖzetBu çal›flmada, daha önce yap›lm›fl çal›flmalarla morfolojik olarak tan›mlanm›fl, konakç› spektrumu ve yap›sal proteinleri belirlenmifl, restriksiyon fragment analizleri yap›lm›fl 231-X10 faj›n›n belirli bir genom bölgesinin dizi analizi yap›lm›flt›r. Dizi analizi yap›lm›fl olan bu bölgede 13 adet aç›k okuma çerçevesinin yani 13 farkl› fonksiyonu kodlayan gen bölgesinin olabilece¤i ortaya ç›kar›lm›flt›r. Bu gen bölgelerinin faj DNA's›n›n replikasyonu, DNA'n›n paketlenmesi, kapsid ve kuyruk yap›s›n›n oluflumundan sorumlu proteinleri kodlad›¤› belirlenmifltir. 231-X10 faj›na ait bu genom bölgesi taraf›ndan kodlanan proteinlerin aminoasit baz›nda cos-tipi DNA paketleme mekanizmas›na sahip fajlarla yüksek benzerlik gösterdi¤i tespit edilmifl ve dolay›s›yla bu faj›n da cos-tipi olabilece¤i sonucuna var›lm›flt›r. Yap›lan bu incelemeler sonucunda S. thermophilus fajlar›n›n ortak bir atadan geldi¤i, nokta mutasyonlar, küçük eklemeler ve kay›plar ile evrimlefltikleri düflüncesi desteklenmifltir. Anahtar kelimeler: S. thermophilus faj›, dizi analizi, genomik organizasyon PARTIAL GENOMIC CHARACTERIZATION OF STREPTOCOCCUS THERMOPHILUS PHAGE 231-X10 AbstractIn this study, the partial genomic sequencing of S. thermophilus 231-X10 phage was carried out. 231-X10 was identified morphologically, and its host spectrum, structural proteins and restriction analysis have also been completed in previous studies. Thirteen different open reading frames that was coded by thirteen genes were detected in that partial genome. These genes are responsible for DNA replication, DNA packaging and the formation of capsid and tail structure. The proteins that are encoded by the genomic region of 231-X10 phage have been found to show high similarities between the phages which have cos-type DNA packaging mechanism on the basis of amino acids. Thus, it is concluded that the 231-X10 phage might also be cos-type. As a result of these investigations, it is supported the idea that S. thermophilus phages come from a common ancestor and evolved with point mutations, small additions and deletions.

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Section: Sonuç Ve Tartişmaunclassified

Streptococcus Thermophilus 231-X10 Fajinin Kismi̇ Genomi̇k Karakteri̇zasyonu

Acar-Soykut¹

2017

GIDA

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A Raman-spectroscopy-based approach for detection and discrimination of Streptococcus thermophilus and Lactobacillus bulgaricus phages at low titer in raw milk

2018

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In this study, a method combining Raman spectroscopy with chemometric analysis was developed for detection of phage presence in raw milk and discrimination of Streptococcus thermophilus and Lactobacillus bulgaricus phages which are among the main phages causing problems in dairy industry. For this purpose, S. thermophilus and L. bulgaricus phages were added into raw milk separately, and then some pretreatments such as fat separation, removal of casein, and filtration were applied to the raw milk samples. Raman spectra of the samples were collected and then analyzed using principal component analysis in order to discriminate these phages in raw milk. In the next step, dilutions of S. thermophilus phages in pretreated raw milk were prepared, and Raman spectra were collected. These spectra were analyzed by using partial least squares method to quantify phages in low titer. Consequently, it has been demonstrated that S. thermophilus and L. bulgaricus phages, which have titers sufficient to fail the fermentation (~ 10 pfu/mL) and have lower titers (10-10 pfu/mL), could be discriminated from antibiotic and each other. Additionally, low concentrations of S. thermophilus phages (10 pfu/mL) could be detected through Raman spectroscopy with a short analysis time (60 min) and high coefficient of determination (R) values for both calibration (0.985) and validation (0.906) with a root mean square error of calibration of 70.54 and root mean square error of prediction of 165.47. However, a lower success was achieved with L. bulgaricus phages and the obtained coefficient of determination values were not sufficiently high (0.649).

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A simple and fast method for discrimination of phage and antibiotic contaminants in raw milk by using Raman spectroscopy

2017

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Phage and antibiotic in raw milk poses significant risks for starter culture activity in fermented products. Therefore, rapid detection of phage and antibiotic contaminations in raw milk is a crucial process in dairy science. For this purpose, a preliminary novel method for detection of phage and antibiotic was developed by using Raman spectroscopy. phages and ampicillin which are quite important elements in dairy industry were used as model. The phage and antibiotic samples were added to raw milk separately, and Raman measurements were carried out. The obtained spectra were processed with a chemometric method. In this study, it has been demonstrated that the presence of phage has a titer sufficient to stop the fermentation (10 pfu/ml), and antibiotic in a concentration which inhibits the growth of starter cultures (0.5 µg/ml) in raw milk could be discriminated through Raman spectroscopy with a short analysis time (30 min).

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Classification of Streptococcus thermophilus Phages Originating from Turkey

Cited by 4 publications

References 25 publications

Streptococcus Thermophilus 231-X10 Fajinin Kismi̇ Genomi̇k Karakteri̇zasyonu

Streptococcus Thermophilus 231-X10 Fajinin Kismi̇ Genomi̇k Karakteri̇zasyonu

A Raman-spectroscopy-based approach for detection and discrimination of Streptococcus thermophilus and Lactobacillus bulgaricus phages at low titer in raw milk

A simple and fast method for discrimination of phage and antibiotic contaminants in raw milk by using Raman spectroscopy

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