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All Journal JURNAL BIOLOGI INDONESIA ANNALES BOGORIENSES Annales Bogorienses
Baroya, Mushlihatun
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Agriculture, Biological Sciences & Forestry Biochemistry, Genetics & Molecular Biology Chemical Engineering, Chemistry & Bioengineering Chemistry Immunology & microbiology Medicine & Pharmacology

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Characterization Of Zygotic And Nucellar Embryo Of Six Indonesian Mango Cultivars Using Molecular Markers Fatimah, Fatimah; Husni, Ali; Kosmiatin, Mia; Karsinah, Karsinah; Baroya, Mushlihatun
ANNALES BOGORIENSES Vol 20, No 2 (2016): Annales Bogorienses
Publisher : Research Center for Biotechnology - Indonesian Institute of Sciences (LIPI)

Show Abstract | Download Original | Original Source | Check in Google Scholar | Full PDF (458.762 KB) | DOI: 10.14203/ann.bogor.2016.v20.n2.69-75

Abstract

Breeding mangoes is a long term activity and complicated. One of difficulties is polyembryonic seeds. These factors make genetic improvement through conventional parental selection and breeding slow and unpredictable. Adoption of molecular markers and genomics-based breeding strategies will likely improve predictability and breeding efficiency. The objective of this study was to evaluate the occurrence of zygotic or nucellar in polyembryony mango cultivars Garifta Merah, Lalijiwo, Manalagi, Madu, Saigon Kuning, and Saigon Merah using RAPD and SSR markers. The type of embryo (zygotic or nucellar) was evaluated by comparing the exhibiting amplification patterns, if different from the mother plant considered as zygotic and identified as nucellar if they exhibited the same banding pattern as the mother plant. Out of the 16 SSR and 16 RAPD primers evaluated, 9 primers each amplified the largest number of allele and sharply defined band. Dendogram of the SSR primers divide into three groups while RAPD primers distinguish clearly into two major groups, zygotic group and nucellar group. Based on zygotic and nucellar size, number and position, indicating no relationship between the type of embryo and embryo size, number and the position. 
ANALISIS MOLEKULER PIRAMIDA GEN XA PADA PROGENI PADI VARIETAS CIHERANG DAN INPARI 13 ., Fatimah; Prasetiyono, Joko; Priyatno, Tri Puji; Yunus, Muhammad; Suhartini, Tintin; Ridwan, Iman; Baroya, Mushlihatun
JURNAL BIOLOGI INDONESIA Vol 11, No 1 (2015): JURNAL BIOLOGI INDONESIA
Publisher : Perhimpunan Biologi Indonesia

Show Abstract | Download Original | Original Source | Check in Google Scholar | DOI: 10.14203/jbi.v11i1.2161

Abstract

Bacterial leaf blight (BLB) is a major disease in Indonesian lowland rice.This research was undertaken to pyramid three BLB resistant genes xa5, Xa7 and Xa21 and one background BLB resistant gene Xa4 into Ciherang and Inpari 13 varieties. The donor parent Code (Xa4+Xa7) was crossed with Angke (Xa4+xa5) while Ciherang and Inpari 13 were crossed with IRBB21 (Xa21). Progenies were selected using marker assisted selection and yield component observation. Foreground selection was conducted using SSR and STS markers linked with the targeted genes in the F1 and DCF1 population. Individuals with triple positives Xa genes were screened for the presence of Xa4 gene as the background. Selected heterozygote plants in F1 Code x Angke, F1 Ciherang x IRBB21 and F1 Inpari 13 x IRBB21 were used to develop DCF1 population. Molecular analysis on DCF1 population through alleles of three BLB resistant genes xa5, Xa7 and Xa21 and one background BLB resistant gene Xa4 resulted 8 (2,6%) in DCF1 Ciherang and 13 (3,5%) in DCF1 Inpari 13. Yield component characters on F1 Code x Angke resulted significant in number of panicle. F1 Ciherang x IRBB21, F1 Inpari 13 x IRBB21 and DCF1 Ciherang resulted significant in weight of empty grain while DCF1 Inpari 13 resulted no significance in all of observed characters. Keywords: Rice, F1 Population, DCF1 Population, molecular marker, Xa gene 
Molecular Detection of Resistance To Bacterial Leaf Blight on Conde Indonesian Rice Variety Fatimah, Fatimah; Prasetiyono, Joko; Polosoro, Aqwin; Baroya, Mushlihatun
Annales Bogorienses Vol. 22 No. 1 (2018): Annales Bogorienses
Publisher : BRIN

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Abstract

Rice bacterial leaf blight (BLB) disease caused by Xanthomonas oryzae pv. oryzae (Xoo) affected grain yield and decreasing rice production in rice growing countries. Conde, Indonesian rice variety, exhibits high resistance to most of the Indonesian races of (BLB) and has been used in Indonesia for cultivated rice. This study was aimed to conduct the molecular detection between proximal markers in chromosome 6 and relative expression of Conde rice variety compare to IRBB7 in Xa7 region. The population screening, BLB evaluation and molecular detection around the Xa7 region were conducted. The results showed from the collection of individual recombinants between resistant and susceptible parents narrow the region containing the BTBPOZ domain. The sequence alignment of Xa7LD37 in two resistant and three susceptible cultivars demonstrated a perfect association. The sequence alignment in exon region of Loc_Os06g46240 in Nipponbare, IRBB7, and IR64 identified indel/SNPs in this region leading to nucleotide substitution and frameshift resulting in amino acid change between resistant and susceptible cultivars. It was predicted that Conde revealed the similar gene action with Xa7 gene for BLB that encodes a BTB POZ domain.
Characterization of Zygotic and Nucellar Embryo of Six Indonesian Mango Cultivars Using Molecular Markers Fatimah, Fatimah; Husni, Ali; Kosmiatin, Mia; Karsinah, Karsinah; Baroya, Mushlihatun
Annales Bogorienses Vol. 20 No. 2 (2016): Annales Bogorienses
Publisher : BRIN

Show Abstract | Download Original | Original Source | Check in Google Scholar

Abstract

One of difficulties in mangoes hybridization is polyembryonic seeds. This phenomenon reduces the chance of recovering true hybrid seedlings. The identification of the zygotic embryo is difficult and the possible approach is by using molecular marker. The objective of this study was to evaluate the utilization of two different marker systems (dominant markers and SSR) to characterize the occurrence of zygotic or nucellar embryo in polyembryony mango cultivars Garifta Merah, Lalijiwo, Manalagi, Madu, Saigon Kuning, and Saigon Merah. The type of embryo was evaluated by comparing the exhibiting amplification patterns, if different from the mother plant considered as zygotic and identified as nucellar if they exhibited the same banding pattern as the mother plant. From both of this marker systems out of the 16 SSR and 16 evaluated dominant primers, nine primers of each systems amplified the largest number of allele and sharply defined band. Dendogram analysis showed that the evaluated dominant markers could distinguish the zygotic and nucellar embryo clearly compare to evaluated SSR primers. The number of zygotic embryos derived from SSR was 64% and dominant markers were 47%. Based on zygotic and nucellar size, number and position, indicating no relationship between the type of embryo and embryo size, number and the position.
Co-Authors Ali Husni Desyandri Desyandri Fatimah . fatimah Fatimah Iman Ridwan, Iman Joko Prasetiyono Karsinah - Mia Kosmiatin Muhammad Yunus Polosoro, Aqwin Tintin Suhartini Tri Puji Priyatno