scholarly journals Insights from the analysis of draft genome sequence of Crocus sativus L.

2022 ◽  
Vol 18 (1) ◽  
pp. 1-13
Author(s):  
Ramanathan Sowdhamini ◽  
Keyword(s):  
Transcription Factors ◽  
Genome Sequence ◽  
Genome Annotation ◽  
Draft Genome ◽  
Economic Importance ◽  
Crocus Sativus ◽  
Draft Genome Sequence ◽  
Functional Genes ◽  
Biosynthesis Pathway ◽  
Crocus Sativus L

Saffron (Crocus sativus L.) is the low yielding plant of medicinal and economic importance. Therefore, it is of interest to report the draft genome sequence of C. sativus. The draft genome of C. sativus has been assembled using Illumina sequencing and is 3.01 Gb long covering 84.24% of genome. C. sativus genome annotation identified 53,546 functional genes (including 5726 transcription factors), 862,275 repeats and 964,231 SSR markers. The genes involved in the apocarotenoids biosynthesis pathway (crocin, crocetin, picrocrocin, and safranal) were found in the draft genome analysis.

scholarly journals De-novo draft genome sequence of Crocus Sativus L, Saffron, a golden condiment.

2021 ◽  
Author(s):  
Sheetal Ambardar ◽  
Jyoti Vakhlu ◽  
Ramanathan Sowdhamini
Keyword(s):  
Genome Sequence ◽  
De Novo ◽  
Economic Status ◽  
Draft Genome ◽  
Crocus Sativus ◽  
Draft Genome Sequence ◽  
Go Annotation ◽  
Kegg Pathways ◽  
Related Family ◽  
Crocus Sativus L

Crocus sativus L, saffron is the highest priced but low yielding plant of medicinal and culinary importance. Despite its economic status, the omic information on this plant is very scarce, with only a couple of transcriptomics and epigenetic studies. In the present study, the draft genome sequence of C. sativus has been assembled using Illumina sequencing. In fact, this is the first genome sequence from any member of family Iridaceae. Genome size of C. sativus was estimated to be 3.5 Gb and the draft genome is 3.01 Gb long with 84.24% genome coverage. In total, 8,62,275 repeats and 9,64,231 SSR markers have been identified. A total of 53,546 functional genes were annotated, out of which, 43,649 proteins were associated with GO annotation. 5726 proteins were identified as transcription factors, with MYB & MYB related family proteins being more abundant. Orthology analysis of C. sativus with 3 different monocot species of the same plant order and rice (model monocot plant) revealed 7328 proteins clusters to be conserved in all the five plant species, whereas 2510 proteins cluster were unique to C. sativus only. 10,912 unigenes of C. sativus were mapped to 387 KEGG pathways of monocot. The genes involved in the pathway of apocarotenoids biosynthesis (crocin, crocetin, picrocrocin, and safranal) were present in the draft genome.

scholarly journals Draft Genome Sequence of Brevibacillus brevis DZQ7, a Plant Growth-Promoting Rhizobacterium with Broad-Spectrum Antimicrobial Activity

2015 ◽  
Vol 3 (4) ◽  
Author(s):  
Qihui Hou ◽  
Chengqiang Wang ◽  
Xiaoyang Hou ◽  
Zhilin Xia ◽  
Jiangping Ye ◽  
...  
Keyword(s):  
Antimicrobial Activity ◽  
Plant Growth ◽  
Genome Sequence ◽  
Broad Spectrum ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Functional Genes ◽  
Plant Growth Promoting ◽  
Brevibacillus Brevis ◽  
Growth Promoting

Brevibacillus brevis DZQ7 is a plant growth-promoting rhizobacterium (PGPR) isolated from tobacco rhizosphere. Here, we report the draft genome sequence of B. brevis DZQ7. Several functional genes related to antimicrobial activity were identified in the genome.

scholarly journals Draft Genome Sequence of the Fungus Trametes hirsuta 072

2015 ◽  
Vol 3 (6) ◽  
Author(s):  
Andrey R. Pavlov ◽  
Tatiana V. Tyazhelova ◽  
Konstantin V. Moiseenko ◽  
Daria V. Vasina ◽  
Olga V. Mosunova ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Genome Annotation ◽  
Draft Genome ◽  
Open Reading Frames ◽  
White Rot ◽  
Draft Genome Sequence ◽  
Trametes Hirsuta ◽  
Protein Coding ◽  
Putative Protein ◽  
Reading Frames

A standard draft genome sequence of the white rot saprotrophic fungus Trametes hirsuta 072 ( Basidiomycota , Polyporales ) is presented. The genome sequence contains about 33.6 Mb assembled in 141 scaffolds with a G+C content of ~57.6%. The draft genome annotation predicts 14,598 putative protein-coding open reading frames (ORFs).

scholarly journals Draft Genome Sequence ofMethanohalophilus mahiiStrain DAL1 Reconstructed from a Hydraulic Fracturing-Produced Water Metagenome

2016 ◽  
Vol 4 (5) ◽  
Author(s):  
Daniel Lipus ◽  
Amit Vikram ◽  
Daniel E. Ross ◽  
Kyle Bibby
Keyword(s):  
Hydraulic Fracturing ◽  
Genome Sequence ◽  
Genome Annotation ◽  
Produced Water ◽  
Marcellus Shale ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Methanohalophilus Mahii

We report here the 1,882,100-bp draft genome sequence ofMethanohalophilus mahiistrain DAL1, recovered from Marcellus Shale hydraulic fracturing-produced water using metagenomic contig binning. Genome annotation revealed several key methanogenesis genes and provides valuable information on archaeal activity associated with hydraulic fracturing-produced water environments.

scholarly journals Draft Genome Sequence of Bacillus methylotrophicus FKM10, a Plant Growth-Promoting Rhizobacterium Isolated from Apple Rhizosphere

2016 ◽  
Vol 4 (1) ◽  
Author(s):  
Chengqiang Wang ◽  
Xiuna Hu ◽  
Kai Liu ◽  
Qihui Hou ◽  
Qianqian Yang ◽  
...  
Keyword(s):  
Antimicrobial Activity ◽  
Plant Growth ◽  
Genome Sequence ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Functional Genes ◽  
Bacillus Methylotrophicus ◽  
Plant Growth Promoting ◽  
Growth Promoting

Bacillus methylotrophicus FKM10 is a strain of plant growth-promoting rhizobacterium with antimicrobial activity, which was isolated from apple rhizosphere. Here, we present the genome sequence of B. methylotrophicus FKM10. Two scaffolds were finally assembled, and several functional genes related to its antimicrobial activity were discovered.

scholarly journals Draft Genome Sequence of a Virulent Pectobacterium carotovorum subsp. brasiliense Isolate Causing Soft Rot of Cucumber

2016 ◽  
Vol 4 (1) ◽  
Author(s):  
Edward M. Onkendi ◽  
Aadi Moolam Ramesh ◽  
Stanford Kwenda ◽  
Sanushka Naidoo ◽  
Lucy Moleleki
Keyword(s):  
South Africa ◽  
Genome Sequence ◽  
Draft Genome ◽  
Soft Rot ◽  
Economic Importance ◽  
Draft Genome Sequence ◽  
Pectobacterium Carotovorum ◽  
Carotovorum Subsp ◽  
Highly Virulent

Pectobacterium carotovorum subsp. brasiliense causes soft rot and blackleg diseases on potatoes, ornamentals, and other crops of economic importance. Here, we report a draft genome sequence of a highly virulent P. carotovorum subsp. brasiliense strain, PcbHPI01, isolated from a cucumber in South Africa.

scholarly journals Draft Genome Sequence of Lactobacillus rhamnosus Strain CBC-LR1, Isolated from Homemade Dairy Foods in Bulgaria

2020 ◽  
Vol 9 (38) ◽  
Author(s):  
Hanan R. Shehata ◽  
Richmond A. Chandler ◽  
Steven G. Newmaster
Keyword(s):  
Genome Sequence ◽  
Genome Annotation ◽  
Draft Genome ◽  
Lactobacillus Rhamnosus ◽  
Gc Content ◽  
Draft Genome Sequence ◽  
Trna Genes ◽  
Content Type ◽  
Dairy Foods ◽  
Total Length

ABSTRACT Here, we report the draft genome sequence of Lactobacillus rhamnosus strain CBC-LR1, which was isolated from naturally processed, homemade dairy foods in Bulgaria. The genome was assembled in 29 contigs with a total length of 2,892,155 bp and a GC content of 46.7%. Genome annotation predicted 2,638 coding genes and 49 tRNA genes.

scholarly journals Draft Genome Sequence of Pseudomonas chlororaphis ATCC 9446, a Nonpathogenic Bacterium with Bioremediation and Industrial Potential

2017 ◽  
Vol 5 (23) ◽  
Author(s):  
Fabian Moreno-Avitia ◽  
Luis Lozano ◽  
Jose Utrilla ◽  
Francisco Bolívar ◽  
Adelfo Escalante
Keyword(s):  
Genome Sequence ◽  
Genome Annotation ◽  
Draft Genome ◽  
Noncoding Rnas ◽  
Draft Genome Sequence ◽  
Pseudomonas Chlororaphis ◽  
Strain Atcc ◽  
Coding Sequences ◽  
Content Type ◽  
Related Organism

ABSTRACT Pseudomonas chlororaphis strain ATCC 9446 is a biocontrol-related organism. We report here its draft genome sequence assembled into 35 contigs consisting of 6,783,030 bp. Genome annotation predicted a total of 6,200 genes, 6,128 coding sequences, 81 pseudogenes, 58 tRNAs, 4 noncoding RNAs (ncRNAs), and 41 frameshifted genes.

scholarly journals Draft Genome Sequence of Microbacterium sp. Strain Alg239_V18, an Actinobacterium Retrieved from the Marine Sponge Spongia sp

2017 ◽  
Vol 5 (3) ◽  
Author(s):  
Elham Karimi ◽  
Jorge M. S. Gonçalves ◽  
Margarida Reis ◽  
Rodrigo Costa
Keyword(s):  
Heavy Metal ◽  
Genome Sequence ◽  
Marine Sponge ◽  
Genome Annotation ◽  
Draft Genome ◽  
Heavy Metal Resistance ◽  
Metal Resistance ◽  
Draft Genome Sequence ◽  
Gene Repertoire

ABSTRACT Here, we describe the draft genome sequence of Microbacterium sp. strain Alg239_V18, an actinobacterium retrieved from the marine sponge Spongia sp. Genome annotation revealed a vast gene repertoire involved in antibiotic and heavy metal-resistance, and a versatile carbohydrate assimilation metabolism with potential for chitin utilization.

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