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Re-secuenciación y secuenciación de novo de genomas microbianos para medicina personalizada

Resumen

Tipo:
Oferta Tecnológica
Referencia:
TOHU20160713001
Publicado:
22/07/2016
Caducidad:
22/07/2017
Resumen:
Un grupo de investigación de una universidad húngara aplica técnicas de secuenciación de nueva generación en el campo de microbiología molecular. Los investigadores han desarrollado un método rápido, automatizable y escalable para ayudar a comprender totalmente los genomas de ADN y ARN. Se buscan socios internacionales del campo de genómica en la población y biotecnología para utilizar los descubrimientos de su investigación y sus servicios bajo acuerdos de servicio y cooperación en materia de investigación.

Details

Tittle:
Re- and de novo sequencing of microbial genomes for the personalized medicine
Summary:
The research group of a Hungarian university applies the new generation sequencing techniques in the field of molecular microbiology. They created a fast, automatable and scalable method that helps make it possible to fully understand the DNA and RNA genomes. The research group seeks international partners from the field of genomics, population genomics and biotechnology to utilize the findings of its research and to use its services in the form of service agreement and research cooperation.
Description:
The research group of the Hungarian university owns the necessary knowledge and instruments to the technology which can be used multifaceted.

Methods that are able to sequence lot of samples simultaneously belong to the new generation sequencing, i.e. they are high-throughput (HTP) methods. Highly developed robotics and computer capacity are required for their use.

With the introduction of the new generation methods, the efficiency of the DNA based studies increased explosively, and their specific cost decreased. With a new generation sequencer it is possible to sequence even the human genome in a few weeks or even in a few hours. Primarily they are applied in the field of functional and environmental genomics (metagenomics), and in the field of transcriptome studies. These methods are suitable not only for the sequencing of DNA, but also for sequencing of mRNA, small RNAs and the so called CHipseq sequencing as well. From these results it can be directly concluded to the expression status of a cell or a material to be studied, and to the regulatory regions of the DNA.
Currently the DNA sequencing becomes the most dominant tool of the molecular biology.

The de novo sequencing is used if the genetic material of the given organism is read for the first time, therefore no reference sequence is available. At the same time its methods are usable in case of and search for larger scale realignments (e.g. mutations of tumor cells).
The full DNA file (which is amplified non-specifically) is fragmented into a size which is suitable for the chosen sequencing technology. Matching the sequence fragments formed during the reading is a very complex task, great coverage is required to organise the reads even for chromosomes. For the de novo matching of the 3 billion base pair of the human DNA, cca. 100 million reads are necessary (depending on the technology). The genomes of the less difficult organisms are smaller by orders of magnitude (e.g. the genomes of the bacteria or viruses), so they can be fully matched even in one go.

Equipment used:
Ion Torrent semiconductor system
With the three-dimensional separation of each sample, simultaneous testing of more samples becomes possible.

The other equipment usually applied for the similar purpose use fluorescent paints and cameras for the detection of DNA elements. Contrast to them, the chip applied in Ion Torrent is able to detect those hydrogen ions, which are formed when a new element is added to the DNA strand. Recording the sequence in the given sample takes less than 1-2 hours, whereas in case of the much larger equipment the processing requires several days. The device encrypts the DNA string of letters directly via a semiconductor chip which measures the change in voltage instead of the light.

Available tests:
- Targeted DNA sequencing
- De novo microbial sequencing
- ChIP sequencing
- Copy number analysis
- Bacterial typing
- SNP validation
- Small RNA sequencing
- Metagenomics
- Genotyping by sequencing

Areas of use:
- Judicature, forensic science - determination of identity
- Identification of genetical risk factors, predispositions to diseases - the possibility of personalised medicine, since it makes possible for the patient to choose the most efficient therapy by knowing his/her DNA
- Detection of viruses, bacteria - identification of the source of infections
- Transplantation genetics - stem cell research
- Prenatal tests
- Study of known genes - primarily the diagnostic of monogenic diseases and to facilitate the choice of the appropriate treatment
- Personalized diagnostics and choice of medicinal products
- Cancer research - simultaneous determination of different genetical lesions
- Population genomics.

The Hungarian research group seeks partners active in the field of conventional and molecular microbiology, genomics, biotechnology and cytogenetics to sign a service and/or research agreement.
Advantages and Innovations:
- Simultaneous sequencing of millions of base pairs (bp)
- Compared to the previous sequencing techniques, the process time of the tests are shorter by orders of magnitude.
- Cost effective
- Good ability of automatization
- No electrophoretic separation
- Multiplexible
- Possibility of simultaneous sequencing of targeted, disease specific genes
- Increased sensitivity
- High scalability
Stage of Development:
Already on the market
IPs:
Secret Know-how

Partner sought

Type and Role of Partner Sought:
Type of partner sought and its area of activity:
All those public or economic entities and/or universities - research institutes can be potential partners, who are active in the field of conventional and molecular microbiology, genomics, biotechnology and cytogenetics, and able to utilize the research group´s technology and capacities.

Client

Type and Size of Client:
University
Already Engaged in Trans-National Cooperation:
Si
Languages Spoken:
English
Hungarian

Keywords

Technology Keywords:
06003001 Bioinformática
06002002 Biología celular y molecular
06002005 Ingeniería genética
06001009 Terapia genética - ADN
06002010 Toxicología