Sequencing of plant genomes ? a review

Mine TÜRKTAŞ; Kuaybe Yücebilgili KURTOĞLU; Gabriel DORADO; Baohong ZHANG; Pilar HERNANDEZ; Turgay ÜNVER

Makale detayları

Sequencing of plant genomes ? a review

Yazarlar:

Mine TÜRKTAŞ | Kuaybe Yücebilgili KURTOĞLU | Gabriel DORADO | Baohong ZHANG | Pilar HERNANDEZ | Turgay ÜNVER

Yayıncı:

TUBITAK

Dergi:

Turkish Journal of Agriculture and Forestry 2015 Vol.39 Issue 3

Belge Tipi:

Makale

Yayın Tarihi:

8/2015

Belge Dili:

Türkçe

Document ID (Org No.):

2000807053

Sıklık:

İki Aylık

eISSN:

1303-6173

pISSN:

1300-011X

Anahtar kelimeler:

Özet:

 

The scientific revolution that started with the human-genome sequencing project, carried out with first-generation sequencing technology, has initiated other sequencing projects, including those for plant species. Different technologies have been developed together with the second- and third-generation sequencing platforms called 1396984945next-generation1396986481 sequencing. This review deals with the most relevant second-generation sequencing platforms, advanced analysis tools, and sequenced plant genomes. To date, a number of plant genomes have been sequenced, with many more projected for the near future. Using the new techniques and developed advanced bioinformatics tools, several studies including both plant genomics and transcriptomics were carried out. Likewise, completion of reference genome sequences and high-throughput resequencing projects presented opportunities to better understand the genomic nature of plants and accelerated the process of crop improvement. Modern sequencing and bioinformatics approaches have led to overcome the challenges that arose mainly in plant genomes with large size, high CG content, heterozygosity, transposable elements, repetitive DNA, and homopolymers or polyploidy, as may be the case with the most important crops. There is no doubt that the rest of the species will also benefit from such breakthroughs, which also include direct RNA sequencing without requiring cDNA synthesis. In fact, we are not in a postgenomic era as is sometimes stated, but rather in the beginning of a genomic revolution.

 

The scientific revolution that started with the human-genome sequencing project, carried out with first-generation sequencing technology, has initiated other sequencing projects, including those for plant species. Different technologies have been developed together with the second- and third-generation sequencing platforms called 1396984945next-generation1396986481 sequencing. This review deals with the most relevant second-generation sequencing platforms, advanced analysis tools, and sequenced plant genomes. To date, a number of plant genomes have been sequenced, with many more projected for the near future. Using the new techniques and developed advanced bioinformatics tools, several studies including both plant genomics and transcriptomics were carried out. Likewise, completion of reference genome sequences and high-throughput resequencing projects presented opportunities to better understand the genomic nature of plants and accelerated the process of crop improvement. Modern sequencing and bioinformatics approaches have led to overcome the challenges that arose mainly in plant genomes with large size, high CG content, heterozygosity, transposable elements, repetitive DNA, and homopolymers or polyploidy, as may be the case with the most important crops. There is no doubt that the rest of the species will also benefit from such breakthroughs, which also include direct RNA sequencing without requiring cDNA synthesis. In fact, we are not in a postgenomic era as is sometimes stated, but rather in the beginning of a genomic revolution.

Makale detayları

Sequencing of plant genomes ? a review

Yazarlar:

Mine TÜRKTAŞ | Kuaybe Yücebilgili KURTOĞLU | Gabriel DORADO | Baohong ZHANG | Pilar HERNANDEZ | Turgay ÜNVER

Yayıncı:

TUBITAK

Dergi:

Turkish Journal of Agriculture and Forestry 2015 Vol.39 Issue 3

Belge Tipi:

Makale

Yayın Tarihi:

8/2015

Belge Dili:

Türkçe

Document ID (Org No.):

2000807053

Sıklık:

İki Aylık

eISSN:

1303-6173

pISSN:

1300-011X

ChIP-Seq

deep sequencing

high-throughput sequencing technologies

RNA-Seq

Sayı

Makale detayları

Sequencing of plant genomes ? a review

Yazarlar: Mine TÜRKTAŞ | Kuaybe Yücebilgili KURTOĞLU | Gabriel DORADO | Baohong ZHANG | Pilar HERNANDEZ | Turgay ÜNVER

Yayıncı: TUBITAK

Dergi: Turkish Journal of Agriculture and Forestry 2015 Vol.39 Issue 3

Belge Tipi: Makale

Yayın Tarihi: 8/2015

Belge Dili: Türkçe

Document ID (Org No.): 2000807053

Sıklık: İki Aylık

eISSN: 1303-6173

pISSN: 1300-011X

ChIP-Seq

deep sequencing

high-throughput sequencing technologies

RNA-Seq

Sayı

Yazarlar:

Mine TÜRKTAŞ | Kuaybe Yücebilgili KURTOĞLU | Gabriel DORADO | Baohong ZHANG | Pilar HERNANDEZ | Turgay ÜNVER

Yayıncı:

TUBITAK

Dergi:

Turkish Journal of Agriculture and Forestry 2015 Vol.39 Issue 3

Belge Tipi:

Makale

Yayın Tarihi:

8/2015

Belge Dili:

Türkçe

Document ID (Org No.):

2000807053

Sıklık:

İki Aylık

eISSN:

1303-6173

pISSN:

1300-011X