Keragaman Genetik 96 Aksesi Plasma Nutfah Padi Berdasarkan 30 Marka SSR Terpaut Gen Pengatur Waktu Pembungaan (HD Genes)

Abstract

AvrBs3/PthA Virulence Factor of Bacterial Leaf Blight Race III, Race IV, Race VIII, and IXO93-068. Dwinita W. Utami, Triny S. Kadir, and Siti Yuriyah. Bacterial leaf blight (BLB) is an important disease of rice and present throughout many of the rice-growing regions in the world, also in Indonesia. Xanthomonas oryzae pv. oryzae (Xoo) is the causal agent and a member of the Protebacteria and like many other this phyllum have a type III secretion system for protein virulence effector (PVE) released on their pathogenicity system. Commonly, PVE in Xanthomonas sp., is coded by AvrBs3/PthA family gene. This research was coducted to identify the virulence factor of AvrBs3/PthA on dominant Indonesian BLB isolates (Race III, Race IV, Ras VIII, and IXO93-068). This objective was obtained by sequence analysis through designed markers for members of the virulence factor AvrBs3/PthA gene family (PthXo4, avrXa7#38, PthXoS and avrXa7sacB50). Results gave information that RaceIII is a dependent elicitor race due to no PVE transcript formed and intraceluler protein target with RLL type on NLS (nuclear localization signal). RaceIV and RaceVIII are the virulent race which PVE active formed with intraceluler protein target and have the RLL and RLLP type for the NLS signal. While isolate IXO93-068 is a virulen isolate that active formed a PVE but the extraceluler protein target is due to no type of NLS. Based on cluster analysis, Race VIII has a genetic distance closely to PthXoS and avrXa7sacB50. Keywords

Morphological variability of Indonesian rice germplasm and the associated SNP markers

“…Our results were complementary previous reports on desired morpho-agronomical traits in Indonesian rice breeding (Setyawati, 2003;Suhartini, 2010;Rohaeni and Hastini, 2015) that was supported with molecular markers approaches (Thomson et al, 2007;Utami et al, 2011). 384-plex SNP used in our study has been designed based on previous version of 1536 SNP chip which enabled to identify genetic relationship of 284 accessions into japonica/ tropical japonica and dominated indica group (Utami et al, 2013).…”

KERAGAMAN GENETIK 22 AKSESI PADI LOKAL TORAJA UTARA BERBASIS MARKA <em>SIMPLE SEQUENCE REPEATS (SSR)</em>

“…Pemanfaatan marka molekuler SSR pada tanaman padi sudah banyak diaplikasikan, di antaranya untuk mengidentifikasi kekerabatan beberapa aksesi padi lokal tahan HPT (Rohaeni et al 2016), keragaman 96 aksesi plasma nutfah padi terkait umur genjah (Utami et al 2011), keragaman genetik beras berwarna berdasarkan marka terkait sifat warna beras (Utami et al 2009;Kristamtini et al 2014), mengidentifikasi sifat toleransi tanaman padi terhadap aluminiun (Anggraheni dan Mulyaningsih 2017), dan diagnostik awal dalam mendeteksi alel-alel ketahanan terhadap wereng batang coklat (WBC) (Chaerani et al 2014).…”

Kekerabatan Beberapa Aksesi Padi Lokal Tahan Hama Penyakit Berdasarkan Analisis Polimorfisme Marka SSR

“…Teknologi ini memberikan hasil yang cepat, efektif, akurat, dan telah banyak diaplikasikan pada komoditas padi, di antaranya keragaman 330 varietas tradisional Indonesia (Thomson et al, 2007), keragaman genetik padi lokal (landrace) Brasil berdasarkan marka SSR putatif (Borba et al, 2009), keragaman 96 aksesi plasma nutfah padi terkait umur genjah (Utami et al, 2011), kekerabatan 26 varietas unggul baru asal Indonesia (Susanto et al, 2014), dan keragaman genetik beras berwarna berdasarkan marka terkait sifat warna beras (Kristamtini et al, 2014;Patel et al, 2014;Suzuki et al, 2004;Utami et al, 2009), serta keragaman daun padi liar (Dechkrong et al, 2015). Penelitian ini bertujuan mengetahui kekerabatan dan jarak genetik beberapa plasma nutfah padi lokal yang telah teridentifikasi secara fenotipik tahan terhadap beberapa jenis HPT berdasarkan analisis polimorfisme beberapa marka SSR.…”