Markers-traits association for iron toxicity tolerance in selected Indonesian rice varieties

Abstract

Abstract. Nugraha Y, Utami DW, Rosdianti I, Ardie SW, Ghulammahdi M, Suwarno, Aswidinnoor H. 2016. Markers-traits association for iron toxicity tolerance in selected Indonesian rice varieties. . Ferrous iron toxicity is a mineral disorder frequently occurring under flooded soils condition where rice is cultivated. Here we study identification the Single Nucleotide Polymorphism (SNPs) markers associated with iron toxicity tolerance characters. The phenotypical data was collected from exploiting of twenty-four rice genotypes that were grown under Yoshida + 0.2% agar solution with treatment of 400 mg. L -1 Fe 2+ and control conditions. The same genotypes were grown in iron toxicity acute and control sites at Taman Bogo, Lampung Province, Indonesia. The Principle Component Analysis (PCA) of the phenotypic data showed that 18 rice genotypes were selected representing grouping of related characters to iron toxicity condition. The genotyping of selected genotypes was carried out using multiplexes of 384 SNPs Golden Gate Illumina© assay. We identified, TBGI380435 which located on 14.45 Mbp of chromosome 9 was associated to leaf bronzing and relative shoot weight characters in the greenhouse experiment. The marker was associated with heavy metal transport detoxification (HTDT). The results are expected to assist in locating the potential candidate genes or Fe toxicity tolerance and to allow for precise marker-assisted selection. This research will serve for rice improvement through marker-assisted breeding and genomic selection in Indonesia.

How Does Rice Defend Against Excess Iron?: Physiological and Molecular Mechanisms

“…In fact, some tolerant genotypes accumulate more Fe in aerial shoots, thus maintaining healthy shoot growth (Onaga et al, 2013). Indonesian rice genotypes, such as Siam Saba, Mahsuri, Margasari, and Pokkali, reportedly exhibit shoot-based tolerance, as evidenced by a high shoot Fe concentration, reduced leaf bronzing, and a high grain yield (Nugraha et al, 2016).…”

Tolerance of Iron-Deficient and -Toxic Soil Conditions in Rice

“…However, h 2 ns had a lower genetic variation than h 2 bs due to a lower proportion of additive variance, which could be explained by gene action in the inheritance traits [ 87 , 88 , 154 ]. By using biparental mapping populations, [ 152 ] noted that intensity of leaf color red (R)/green (G)index, root length, LBS, shoot length tiller number grain number per panicle and fresh shoot weight were associated with FT tolerance. The additive and dominance traits of SL and FSW and R/G index were non-significant through χ 2 analyses, which indicate the presence of non-allelic gene interactions or epistasis.…”

“…The PCA analysis of 24 selected rice genotypes, grain yield, and biomass are the parameters that differentiated tolerant genotypes from susceptible ones. Interestingly, genotypes Siam Saba, Cilamaya Muncul, Mahsuri, Margasari, and Pokkali had the lowest LBS, with high shoot Fe concentration and grain yield among all of the tested genotypes [ 39 , 152 ]. Therefore, the tolerant genotypes can store more Fe accumulation in the above-ground plant organs, and bring about more vigorous plant growth [ 62 ].…”

Keragaman morfologi 20 kultivar padi lokal asal Kalimantan Timur

“…Sitaresmi et al (2013) melaporkan bahwa saat ini telah teridentifikasi varietas padi lokal yang memiliki ketahanan terhadap hama ganjur, bakteri hawar daun, hawar daun jingga, blas daun, blas leher, daun bergaris putih, wereng batang coklat, tungro, kekeringan, keracunan Al, keracunan fe, salinitas, suhu rendah dan naungan. Selain itu juga telah ditemukan aksesi-aksesi padi lokal yang berpotensi sebagai sumber gen untuk perakitan varietas unggul padi tahan penyakit hawar daun bakteri (Yuliani et al 2014), toleran kahat P (Suhartini et al 2013), dan toleran keracunan Fe (Nugraha et al 2016). Oleh karena itu dari sisi pemuliaan tanaman padi lokal merupakan aset yang sangat berharga sebagai sumber gen baik, sehingga harus dilestarikan keberadaannya.…”