Blog

21 August 2020

Amplicon-Seq for SARS-CoV-2 detection: tips for improved yields

Since studies related to COVID-19 are attracting great scientific interest, we recently focused our activities in recovery of viral sequences from swab samples by two methods: amplicon-Seq and RNA-Seq (using Trio RNA-Seq library preparation kit by Tecan Genomics as reported in our previous post).

21 July 2020

Ultra-low RNA-seq for SARS-CoV-2 detection from nasopharyngeal swabs

critical factors to consider for deep sequencing from clinical samples

30 April 2020

Exome-Seq: #Quality #Genetics

Proud to announce that we are keeping our quality standards high by qualifying again above the mean in the external quality assessment of NextGen DNA Sequencing by the European Molecular Genetics Quality Network (EMQN).

22 April 2020

Applying RNA-seq to COVID19 clinical samples

Sequencing of the SARS-Cov2 genomes using standard RNA-Seq strategies has been so far mainly achieved using viral culture or BALF, providing adequate viral copies as input template. However, for large-scale surveys of genome mutations, their spread, along with the ability to assess potential co-infections, the analysis of common swab samples with an unbiased RNA-Seq approach is an ideal solution, potentially, for any respiratory infection. 

27 January 2020

Exome-seq saturation analysis: when you should STOP sequencing

Sequencing coverage in exome-seq is one of the major issues since a small difference in percentage coverage may significantly impact diagnostic outcome.

06 August 2019

Exome-Seq: dealing with degraded samples

It is known that Next Gen sequencing requires the gDNA input of high molecular weight to construct quality libraries.

20 June 2019

NeosVine: a pioneering project for sustainable viticulture

Genome editing for improved vines The effects of climate change and population growth open new scenarios for agriculture and set new goals for researchers and farmers. In fact, today’s increase in agricultural production cannot be separated from the reduction of its environmental impact. In this perspective, green biotechnology research is focused on studying plant genomes to improve adaptability and resistance to different environmental conditions and pathogens/parasites, without altering the genetic characteristics of the cultivated varieties. The goal is to grow stronger and more adaptive plants and enable farmers to become less dependent on chemicals to protect crops. The picture just described is the focal point of the NeosVine research project, started by IGA Technology Services, a spin-off of the Institute of Applied Genomics of Udine (IGA) in collaboration with the Vivai Cooperativi Rauscedo, granted by the Italian Autonomous Region Friuli Venezia Giulia.

22 May 2019

Proud to announce that we have achieved ISO 9001:2015 Certification

Proud to announce that we have achieved ISO 9001:2015 Certification, an internationally recognized quality management standard that guaranties our ability to consistently provide services that meet both customer and applicable statutory and regulatory requirements.

20 March 2019

Universal primers for characterization of fungal microbiome in higher plants

Just a few days ago we discussed difficulties encountered when investigating host-associated mycobiomes by a metabarcoding approach suggesting some solutions.

15 March 2019

17 December 2018

Buffalo or Cow? Metagenomic profiles of different types of Italian high-moisture Mozzarella cheese

In our latest study we compared metagenomic profiles of different mozzarella cheeses.

06 August 2018

NeosVine Project: Green biotechnologies to improve the sustainability of viticulture & tackle climate change

Global agriculture under pressure: increasing output while minimizing environmental impact Incredible population growth (by the middle of the 21st century we will be over nine billion people) imposes an unprecedented demand on the planet’s resources and capabilities. Imbalance between the agricultural lands needed for food production and the boost urban development, needed to accommodate this population increase, goes at the expense of farm lands. Consider also climatic changes that are likely going to have a negative impact on both natural ecosystems and agricultural productivity. The picture is quite dramatic.

04 June 2018

#LabNote: the impact of sequencing coverage in 16S metagenomics

You have surely noticed by now that one of the most universal questions in NGS is:

21 May 2018

#LabNote: Exome-seq Low Input Crash Test

Targeted capture is one of the most popular NGS applications. However, due to the often-limited amounts of tissue it is challenging to satisfy quality requirements and obtain 200 ng of input DNA still needed by most protocols.

23 April 2018

#LabNote: Testing Novel ITS1 Fungal Primers for Characterization of the Human Mycobiome

Metabarcoding Identification and classification of eukaryotes increasingly depends on DNA sequences of standardized genetic markers, a concept known as DNA barcoding. Thus, molecular taxonomists continue to search for regions conserved enough to allow reliable priming but sufficiently variable to yield highly resolved and well-supported phylograms. The ideal characteristics include adequate species resolution, ease of amplification, absence of extreme length variation, the presence of only single copies and low intra-species variability.

13 April 2018

ChIP-seq pipeline update: Differential Binding Analysis Available

ChIP-Seq is extensively used to characterize genome-wide binding patterns of transcription factors and other chromatin-associated proteins.

26 March 2018

Exome-seq: #Genomics #Quality #Genetics

So proud to announce that we qualified above the mean and got a green label in the external quality assessment of NextGen DNA Sequencing by European Molecular Genetics Quality Network (EMQN).

18 December 2017

WATBIO: IGATech pioneered SPET in a European FP7 project on drought-tolerant biomass crops

WATBIO is a European Framework 7 funded collaborative research project focused on developing drought-tolerant biomass crops for Europe. IGATech is the leading SME partner in WATBIO and conducts all the next-generation sequencing work. A large proportion of the WATBIO DNA and RNA sequencing work is done on poplar, and the WATBIO project has enabled IGATech to drive significant innovation in the type of sequencing involved.

16 October 2017

#LabNote: implementing PRO-amp - a new protocol that increases the overall quality of 16S sequencing

16S amplicons loaded on a single Illumina lane (regardless of platform type or sequencing length) use to suffer poor quality due to low base complexity. Each cluster on a flowcell starts with the same base (the primers used for amplification) and mostly continue in a low complexity region depending on the diversity of the microbial community (which is anyhow far from balanced base composition on each cycle of sequencing; Fig. 1A). This causes impairing in the cluster identification during first cycles of sequencing since all clusters will emit the same color and thus reduce the ability to discriminate those that juxtapose one another.

23 July 2017

#LabNote: 16S rRNA metagenomics - increasing efficiency by blocking amplification of contaminating sequences from a eukaryotic host

16S rRNA sequencing is the most common approach used to identify microbes without the need to sequence entire genome. It is fast, cost-effective and flexible; however the method suffers some inefficiencies.