Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves

EYİDOĞAN, FÜSUN; ÖZ, Mehmet Tufan; ÖKTEM, HÜSEYİN AVNİ; GRAAFF, Leo de; YÜCEL, Meral; YILMAZ, Remziye

Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves

Mehmet Tufan ÖZ, (Orta Doğu Teknik Üniversitesi, Biyoloji Bölümü, Ankara)

Remziye YILMAZ, (Orta Doğu Teknik Üniversitesi, Biyoloji Bölümü, Ankara)

Füsun EYİDOĞAN, (Başkent Üniversitesi, Eğitim Fakültesi, Ankara, Türkiye)

Leo de GRAAFF, (Wageningen Univercity Laboratory of Microbiology, Fungal Genomics Group Wageningen, Netherlands)

Meral YÜCEL, (Orta Doğu Teknik Üniversitesi, Biyoloji Bölümü, Ankara)

Hüseyin Avni ÖKTEM (Orta Doğu Teknik Üniversitesi, Biyoloji Bölümü, Ankara)

Turkish Journal of Agriculture and Forestry

3 0

Yıl: 2009 Cilt: 33 Sayı: 2 Sayfa Aralığı: 191 - 202 Metin Dili: Türkçe İndeks Tarihi: 29-07-2022

Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves

Öz:

DNA mikroarrayleri, aynı anda binlerce gen ve bunlara ait ifade seviyelerinin kantitatif analizlerine izin vermektedir. Bu çalışmada, hassas arpa (Hordeum vulgare L.) çeşidi Hamidiye yaprak dokularında bor (B) toksisitesi ile ilgili transkriptom değişiklikleri Barley1 GeneChip kullanılarak araştırılmıştır. Aseptik koşullarda büyütülmüş 8 günlük bitkilere 5 gün boyunca 5 ya da 10 mM borik asit (B(OH)3) uygulanmış ve DNA mikroarrayleri ile yaprak dokusunda gen ifade profilleri belirlenmiştir. GeneChip üzerinde herbiri bir prob seti ile temsil edilen 22.840 transkriptten 19.424’ü, en az bir hibridizasyonda, tüm sinyal değerlerinin % 20’lik en düşük diliminden daha yüksek sinyal vermiştir. Kontrol (10 μM B(OH)3) ile karşılaştırıldığında, 5 mM B(OH)3 uygulaması 168 genin ifade seviyelerinde en az 2 kat farklılığa neden olmuştur. Ayrıca 10 mM B(OH)3 uygulaması 312 genin ifade seviyelerinde en az 2 kat artış ya da azalış ile sonuçlanmıştır. 5 ve 10 mM B(OH)3 uygulaması altında bu genler arasından sırası ile 37 ve 61 gene ait ifade seviyeleri anlamlı (P < 0.05) farklılıklar göstermiştir. İfadesi farklılık göstermiş genler gen ifadelerine dayalı kümeleme ve HarvEST:Barley ile tanımlanmıştır. İfade profillerinin incelenmesi ile, B toksisitesinin arpa transkriptomunda ve sinyal ya da moleküler tepki ağlarında geniş çaplı değişikliklere neden olduğu ortaya konmuştur. Toksisiteye tepkinin önemli bir özelliği çeşitli çevresel streslere tepki ile bağlantılı olmasıdır. Buna ek olarak jasmonik asit ile ilgili genlerin ifadelerindeki artışın B toksisitesine önemli bir geç tepki olduğu bulunmuştur. Bor stresi altında arpanın genel gen ifade analizi üzerine ilk araştırma olan bu çalışma, bor toksisitesinin moleküler mekanizmalarını açıklamayı amaçlayan sonraki çalışmalara ışık tutacaktır.

Anahtar Kelime:

Konular: Orman Mühendisliği

Arpa (Hordeum vulgare L.) yapraklarında Bor Toksisitesine geç tepkinin mikroarray analizleri

Öz:

DNA microarrays, being high-density and high-throughput, allow quantitative analyses of thousands of genes and their expression patterns in parallel. In this study, Barley1 GeneChip was used to investigate transcriptome changes associated with boron (B) toxicity in a sensitive barley cultivar (Hordeum vulgare L. cv. Hamidiye). Eight-day-old aseptically grown seedlings were subjected to 5 or 10 mM boric acid (B(OH)3) treatments for 5 days and expression profiles were determined with DNA microarrays using total RNA from leaf tissues. Among the 22,840 transcripts – each represented with a probe set on the GeneChip – 19,424 probe sets showed intensity values greater than 20th percentile in at least one of the hybridizations. Compared to control (10 μM B(OH)3), 5 mM B(OH)3 treatment resulted in differential expression of 168 genes at least by twofold. Moreover, 10 mM B(OH)3 treatment resulted in at least twofold induction or reduction in expression of 312 transcripts. Among these genes, 37 and 61 exhibited significantly (P < 0.05) altered levels of expression under 5 and 10 mM B(OH)3 treatments, respectively. Differentially expressed genes were characterized using expression-based clustering and HarvEST:Barley. Investigations of expression profiles revealed that B toxicity results in global changes in the barley transcriptome and networks of signaling or molecular responses. A noticeable feature of response to B was that it is highly interconnected with responses to various environmental stresses. Additionally, induction of jasmonic acid related genes was found to be an important late response to B toxicity. Determination of responsive genes will shed light on successive studies aiming to elucidate molecular mechanism of B toxicity or tolerance. To the best of our knowledge, this is the first report on global expression analysis of barley seedlings under B toxicity.

Anahtar Kelime:

Konular: Orman Mühendisliği

Belge Türü: Makale Makale Türü: Araştırma Makalesi Erişim Türü: Erişime Açık

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APA	ÖZ M, YILMAZ R, EYİDOĞAN F, GRAAFF L, YÜCEL M, ÖKTEM H (2009). Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. , 191 - 202.
Chicago	ÖZ Mehmet Tufan,YILMAZ Remziye,EYİDOĞAN FÜSUN,GRAAFF Leo de,YÜCEL Meral,ÖKTEM HÜSEYİN AVNİ Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. (2009): 191 - 202.
MLA	ÖZ Mehmet Tufan,YILMAZ Remziye,EYİDOĞAN FÜSUN,GRAAFF Leo de,YÜCEL Meral,ÖKTEM HÜSEYİN AVNİ Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. , 2009, ss.191 - 202.
AMA	ÖZ M,YILMAZ R,EYİDOĞAN F,GRAAFF L,YÜCEL M,ÖKTEM H Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. . 2009; 191 - 202.
Vancouver	ÖZ M,YILMAZ R,EYİDOĞAN F,GRAAFF L,YÜCEL M,ÖKTEM H Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. . 2009; 191 - 202.
IEEE	ÖZ M,YILMAZ R,EYİDOĞAN F,GRAAFF L,YÜCEL M,ÖKTEM H "Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves." , ss.191 - 202, 2009.
ISNAD	ÖZ, Mehmet Tufan vd. "Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves". (2009), 191-202.

APA	ÖZ M, YILMAZ R, EYİDOĞAN F, GRAAFF L, YÜCEL M, ÖKTEM H (2009). Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. Turkish Journal of Agriculture and Forestry, 33(2), 191 - 202.
Chicago	ÖZ Mehmet Tufan,YILMAZ Remziye,EYİDOĞAN FÜSUN,GRAAFF Leo de,YÜCEL Meral,ÖKTEM HÜSEYİN AVNİ Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. Turkish Journal of Agriculture and Forestry 33, no.2 (2009): 191 - 202.
MLA	ÖZ Mehmet Tufan,YILMAZ Remziye,EYİDOĞAN FÜSUN,GRAAFF Leo de,YÜCEL Meral,ÖKTEM HÜSEYİN AVNİ Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. Turkish Journal of Agriculture and Forestry, vol.33, no.2, 2009, ss.191 - 202.
AMA	ÖZ M,YILMAZ R,EYİDOĞAN F,GRAAFF L,YÜCEL M,ÖKTEM H Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. Turkish Journal of Agriculture and Forestry. 2009; 33(2): 191 - 202.
Vancouver	ÖZ M,YILMAZ R,EYİDOĞAN F,GRAAFF L,YÜCEL M,ÖKTEM H Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves. Turkish Journal of Agriculture and Forestry. 2009; 33(2): 191 - 202.
IEEE	ÖZ M,YILMAZ R,EYİDOĞAN F,GRAAFF L,YÜCEL M,ÖKTEM H "Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves." Turkish Journal of Agriculture and Forestry, 33, ss.191 - 202, 2009.
ISNAD	ÖZ, Mehmet Tufan vd. "Microarray analysis of late response to boron toxicity in Barley (Hordeum vulgare L.) leaves". Turkish Journal of Agriculture and Forestry 33/2 (2009), 191-202.