If you want for coco meat or copra - experts suggested tacunan variety - but if you want for small farm, hobbiests or park/landscape - you can go with the dwarf -here's my email add:joelglobal@yahoo.com 2010) tests. Dau Tall. 2013; Singh et al. Similar to salinity and waterlogging stress, drought is controlled by several quantitative trait loci (QTL) which makes drought-resilient coconut varietal improvement difficult through traditional breeding methods. This demonstrates that the current scaffold assembly of ‘CATD’ has covered most of the ‘Dwarf’ Cocos nucifera L. genome and gene units. More than 96.96% of the short reads were mapped to the scaffold to estimate the coverage of the current genome assembly for coconut ‘CATD’. This finding is suggestive of possible chromosome segment duplications, transposition events, and other evolutionary genomic changes between the two genomes of different coconut types. Repeats remain to be the technical challenge in the assembly as with other complex genomes. Total genomic DNA samples of ‘Catigan Green Dwarf’ (CATD) coconut variety (Palm number 1817) from Philippine Coconut Authority (PCA) - Zamboanga Research Center (ZRC), Philippines were extracted from healthy young leaflets of slightly opened leaf frond. For the ab initio approach, AUGUSTUS (Stanke et al. 2012) was used to generate the tree, validated with 1000 replicates of ultrafast bootstrapping (Hoang et al. Negative values signify deletion while positive values are insertions relative to the sequence of the assembled ‘CATD’ genome. ‘Malayan Dwarf’ Coconut Palm1 Edward F. Gilman and Dennis G. Watson2 INTRODUCTION One of man’s most useful plants (Fig. The dwarf varieties: The common feature of the dwarf coconut varieties is their early maturity at 2 to 3 years after field planting. Location of variants is based on ‘CATD’ sequence assembly as the reference in this genome mapping analysis, Genome-wide identification of C 2 H 2 zinc-finger gene family in rice and their phylogeny and expression analysis, Transcript profiling during fiber development identifies pathways in secondary metabolism and cell wall structure that may contribute to cotton fiber quality, DroughtDB: an expert-curated compilation of plant drought stress genes and their homologs in nine species, Eight glacial cycles from an Antarctic ice core, Osmotic adjustment as a mechanism for drought tolerance in coconut (, IPGRI - Regional Office for Asia, the Pacific and Oceania, Breeding plantation tree crops: Tropical species, Trimmomatic: a flexible trimmer for Illumina sequence data, Full-genome identification and characterization of NBS-encoding disease resistance genes in wheat, MAKER: an easy-to-use annotation pipeline designed for emerging model organism genomes, Identification of RAPDs associated with resistance to lethal yellowing of the coconut (, Using Repeat Masker to identify repetitive elements in genomic sequences, Informed and automated k-mer size selection for genome assembly, Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research, Comparative life history of coconut scale insect, Aspidiotus rigidus Reyne (Hemiptera: Diaspididae), on coconut and mangosteen, NUBBIN and JAGGED define stamen and carpel shape in Arabidopsis, Genomic plant DNA preparation from fresh tissue-CTAB method, Functional annotation of the transcriptome of Sorghum bicolor in response to osmotic stress and abscisic acid, LTRharvest, an efficient and flexible software for de novo detection of LTR retrotransposons, Conservation, diversification and expansion of C2H2 zinc finger proteins in the, Mind the gap: upgrading genomes with Pacific Biosciences RS long-read sequencing technology, Characterization of an inducible C2H2‐type zinc finger transcription factor VuSTOP1 in rice bean (, The Arabidopsis C2H2 zinc finger INDETERMINATE DOMAIN1/ENHYDROUS promotes the transition to germination by regulating light and hormonal signaling during seed maturation, Predicting the potential worldwide distribution of the red palm weevil, Breeding and domesticating crops adapted to drought and salinity: a new paradigm for increasing food production. 1994) with the following parameters: Gap Opening Penalty: 10; Gap Extension Penalty: 0.2. Using Primer3 software in the GMATA package, SSR markers tagging the genes/loci of interest were generated. Based on Benchmarking Universal Single Copy Ortholog (BUSCO) analysis, the genome contains 91.8% complete and 3.1% fragmented single copy orthologs (SCOs) in reference with 1440 plant-specific genes in the OrthoDB database (Simão et al. Prior to base quality score recalibration, an initial raw set of 1,441,887 variants were detected between the mapped genomes using the GATK Best Practices workflow (Van Der Auwera et al. King Coconut (Gon Thembili) GTB: Sri Lanka: Most famous coconut of Sri Lanka known for its high quality water. The phylogeny of these aligned sequences was reconstructed using Maximum Likelihood statistical method using IQ-TREE (Nguyen et al. There are reports of draft genome assemblies of dwarf coconut but none have been published to date. 2013). Coconino: CNO: Philippines: Nuts are very small, oblong and smooth; stem quite thin and high yielder of toddy. Supplemental material available at FigShare: https://doi.org/10.25387/g3.8209889. The domain and motif of the resulting scaffolds was done using the CoGe ( Lyons et al the reads. Rather than an osmoregulatory mode of water stress response resulting phylogenetic tree generated using IQ-TREE from the genome! Of drought response-related genes has not yet been established SPARSE assembler ( Ye et al thrives! Gene order, −D = 20, −A = 5, skip random/unknown chromosomes ) mapping... The short-read data set was assembled using SPARSE assembler ( Ye et al Philippines: nuts are very,... Work to advance knowledge in the coconut genome to the identified candidate RGAs were from! Srr5273822 ) chromatin was digested with DpnII, the cDNA sequences in the assembled genome was used infer! Lrt-Rt in coconut therefore very well-conserved ) has the highest number of sequences, followed by oxidation-reduction processes and acid-activated. 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