scholarly journals A draft genome sequence of the common, or spectacled caiman Caiman crocodilus

F1000Research ◽  
2021 ◽  
Vol 10 ◽  
pp. 1230
Author(s):  
Kenichi Okamoto ◽  
Nichole Dopkins ◽  
Elias Kinfu
Keyword(s):  
Genome Sequence ◽  
Genome Assembly ◽  
De Novo ◽  
Draft Genome ◽  
Global Market ◽  
Draft Genome Sequence ◽  
Draft Assembly ◽  
Caiman Crocodilus ◽  
The Common ◽  
Alligator Mississipiensis

The common, or spectacled, caiman Caiman crocodilus is an abundant, widely distributed Neotropical crocodilian exhibiting notable morphological and molecular diversification. The species also accounts by far for the largest share of crocodilian hides on the global market, with the C. crocodilus hide trade alone valued at about US$86.5 million per year. We obtained 239,911,946 paired-end reads comprising approximately 72 G bases using IlluminaTM sequencing of tissue sampled from a single Caiman crocodilus individual. These reads were de-novo assembled and progressively aligned against the genomes of increasingly related crocodilians; liftoff was used to annotate the draft C. crocodilus genome assembly based on an Alligator mississipiensis (a confamilial species) annotation. The draft assembly has been submitted to the National Center for Biotechnology Information and both assembly and annotation are currently available for review at doi.org/10.5281/zenodo.4755063

scholarly journals Draft Genome Sequence of Halotolerant Bacterium Chromohalobacter salexigens ANJ207, Isolated from Salt Crystal Deposits in Pipelines

2019 ◽  
Vol 8 (15) ◽  
Author(s):  
Alok Kumar Srivastava ◽  
Anjney Sharma ◽  
Ruchi Srivastava ◽  
Praveen Kumar Tiwari ◽  
Alok Kumar Singh ◽  
...  
Keyword(s):  
Genome Sequence ◽  
De Novo ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Salt Crystal ◽  
Draft Assembly ◽  
Content Type ◽  
Halotolerant Bacterium ◽  
Nacl Concentration ◽  
Chromohalobacter Salexigens

Chromohalobacter salexigens ANJ207 was isolated from a salt crystal and is known to tolerate up to 30% NaCl concentration. Here, we report the de novo draft assembly of C. salexigens ANJ207.

scholarly journals Draft Genome Sequence and Annotation of the Lichen-Forming Fungus Arthonia radiata

2018 ◽  
Vol 6 (14) ◽  
Author(s):  
Ellie E. Armstrong ◽  
Stefan Prost ◽  
Damien Ertz ◽  
Martin Westberg ◽  
Andreas Frisch ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Genome Assembly ◽  
Type Species ◽  
De Novo ◽  
Transcriptome Assembly ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Illumina Hiseq ◽  
Content Type ◽  
Mate Pair

ABSTRACT We report here the draft de novo genome assembly, transcriptome assembly, and annotation of the lichen-forming fungus Arthonia radiata (Pers.) Ach., the type species for Arthoniomycetes, a class of lichen-forming, lichenicolous, and saprobic Ascomycota. The genome was assembled using overlapping paired-end and mate pair libraries and sequenced on an Illumina HiSeq 2500 instrument.

scholarly journals Draft Genome Sequence of a Fungus (Fusarium tricinctum) Cultured from a Monoisolate Native to the Himalayas

2018 ◽  
Vol 6 (20) ◽  
Author(s):  
Narendra Meena ◽  
M. Vasundhara ◽  
M. Sudhakara Reddy ◽  
Prashanth Suravajhala ◽  
U. S. Raghavender ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Genome Assembly ◽  
De Novo ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Read Length ◽  
Content Type ◽  
Genome Sequence Assembly ◽  
Sequencing Chemistry ◽  
Fusarium Tricinctum

ABSTRACT Here, we report the draft de novo genome sequence assembly of Fusarium tricinctum (strain T6), using IonTorrent sequencing chemistry and an Ion 530 chip ExT kit for sequencing. The genome assembly resulted in 42,732,204 bp from a total 6.62 Gb, with a median read length of 386 bp.

scholarly journals Draft Genome Sequence of Leifsonia xyli subsp. xyli Strain gdw1

2016 ◽  
Vol 4 (5) ◽  
Author(s):  
Jihua Wang ◽  
Li Wang ◽  
Gan Cao ◽  
Muqing Zhang ◽  
Ying Guo
Keyword(s):  
Genome Sequence ◽  
Genetic Improvement ◽  
De Novo ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Coding Sequences ◽  
Ratoon Stunting Disease

Here, we report the draft genome sequence of Leifsonia xyli subsp. xyli strain gdw1, isolated from the stem of Badila sugarcane located at the Guangdong Key Laboratory for Crops Genetic Improvement (Guanzhou, China), that causes ratoon stunting disease of sugarcane. The de novo genome of Leifsonia xyli subsp. xyli was assembled with 48 scaffolds and a G+C content of 67.68%, and contained 2.6 Mb bp and 2,838 coding sequences.

scholarly journals Draft Genome Sequence of the Community-Associated Staphylococcus aureus Sequence Type 88 Strain LVP-7, Isolated from an Ocular Infection

2021 ◽  
Vol 10 (7) ◽  
Author(s):  
Savitha Nadig ◽  
Sneha Murthy ◽  
Muralidharan Vandanashree ◽  
Hosahalli S. Subramanya ◽  
Balasubramanian Gopal ◽  
...  
Keyword(s):  
Staphylococcus Aureus ◽  
Genome Sequence ◽  
De Novo ◽  
Draft Genome ◽  
Sequence Type ◽  
Draft Genome Sequence ◽  
Ocular Infection ◽  
Content Type ◽  
Type V ◽  
Panton Valentine Leukocidin

ABSTRACT We report a de novo-assembled draft genome sequence of the Indian Staphylococcus aureus sequence type 88 (ST88) strain LVP-7, isolated from an ocular infection. The genome harbors a Panton-Valentine leukocidin phage, a type V staphylococcal cassette chromosome mec element, the delta-hemolysin-converting Newman phage ΦNM3, and the pathogenicity island SaPI3, encoding the superantigen enterotoxin B.

scholarly journals Draft Genome Sequence of Mesosutterella multiformis JCM 32464T, a Member of the Family Sutterellaceae, Isolated from Human Feces

2019 ◽  
Vol 8 (24) ◽  
Author(s):  
Nao Ikeyama ◽  
Moriya Ohkuma ◽  
Mitsuo Sakamoto
Keyword(s):  
Genome Sequence ◽  
Genome Assembly ◽  
Draft Genome ◽  
Genomic Analysis ◽  
Draft Genome Sequence ◽  
Human Feces ◽  
The Family ◽  
Metabolic Activities

Here, we report the draft genome sequence of Mesosutterella multiformis JCM 32464T, a new member of the family Sutterellaceae that was isolated from human feces. The genome assembly comprised 2,621,983 bp, with a G+C content of 56.9%. This genomic analysis will be useful for understanding the metabolic activities of this asaccharolytic bacterium.

scholarly journals Draft Genome Sequence of Pediatric Otitis Media Isolate Streptococcus pneumoniae Strain EF3030, Which Forms In Vitro Biofilms That Closely Mimic In Vivo Biofilms

2019 ◽  
Vol 8 (2) ◽  
Author(s):  
Edgar J. Scott ◽  
Nicole R. Luke-Marshall ◽  
Anthony A. Campagnari ◽  
David W. Dyer
Keyword(s):  
Streptococcus Pneumoniae ◽  
Otitis Media ◽  
Genome Sequence ◽  
Dna Sequences ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Draft Assembly ◽  
Content Type

Here, we report the draft genome sequence of Streptococcus pneumoniae EF3030, a pediatric otitis media isolate active in biofilm assays of epithelial colonization. The final draft assembly included 2,209,198 bp; the annotation predicted 2,120 coding DNA sequences (CDSs), 4 complete rRNA operons, 58 tRNAs, 3 noncoding RNAs (ncRNAs), and 199 pseudogenes.

scholarly journals Draft Genome Sequence of Bacillus marisflavi CK-NBRI-03, Isolated from Agricultural Soil

2020 ◽  
Vol 9 (7) ◽  
Author(s):  
Mayank Gupta ◽  
Puneet Singh Chauhan ◽  
Sudhir K. Sopory ◽  
Sneh L. Singla-Pareek ◽  
Nidhi Adlakha ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Genome Assembly ◽  
Agricultural Soil ◽  
Draft Genome ◽  
Uttar Pradesh ◽  
Draft Genome Sequence ◽  
Positive Bacterium ◽  
Gram Positive ◽  
Content Type ◽  
Draft Genome Assembly

Here, we report the 4.34-Mb draft genome assembly of Bacillus marisflavi CK-NBRI-03 (or P3), a Gram-positive bacterium, with an average G+C content of 48.66%. P3 was isolated from agricultural soil from the Badaun (midwestern plain zone) region of Uttar Pradesh, India.

scholarly journals Draft Genome Sequence of Rhizobium tropici SARCC-755, a Free-Living Rhizobium That Nodulated and Promoted Growth in Pigeonpea [Cajanus cajan (L.) Millsp.]

2020 ◽  
Vol 9 (2) ◽  
Author(s):  
Francina Lebogang Bopape ◽  
Ahmed Idris Hassen ◽  
Zacharias H. Swanevelder ◽  
Eastonce T. Gwata
Keyword(s):  
Genome Sequence ◽  
Cajanus Cajan ◽  
Draft Genome ◽  
Soil Bacterium ◽  
Draft Genome Sequence ◽  
Rhizobium Tropici ◽  
Free Living ◽  
Content Type ◽  
Legume Plant ◽  
The Common

Rhizobium tropici SARCC-755 is a free-living soil bacterium that formed nodules on pigeonpea roots in the present study. However, the draft genome sequence reveals that this Rhizobium species contains the nolR gene but lacks the common nodulation (nodABC) genes and probably uses other pathways to induce nodules on the legume plant.

scholarly journals Draft Genome Sequence ofBacillus subtilisIa1a, a New Strain for Poly-γ-Glutamic Acid and Exopolysaccharide Production

2016 ◽  
Vol 4 (6) ◽  
Author(s):  
Mohammad H. A. Ibrahim ◽  
Brady F. Cress ◽  
Robert J. Linhardt ◽  
Mattheos A. G. Koffas ◽  
Richard A. Gross
Keyword(s):  
Bacillus Subtilis ◽  
Glutamic Acid ◽  
Genome Sequence ◽  
Genome Assembly ◽  
Draft Genome ◽  
Carbon Sources ◽  
Draft Genome Sequence ◽  
High Quality ◽  
Exopolysaccharide Production ◽  
Draft Genome Assembly

We report here the 4.092-Mb high-quality draft genome assembly of a newly isolated poly-γ-glutamic acid–producing strain,Bacillus subtilisIa1a. The genome sequence is considered a critical tool to facilitate the engineering of improved production strains. Exopolysaccharides and many industrially important enzymes can be produced by this new strain utilizing different carbon sources.

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