The genomic DNA from pure and highly enriched cultures was obtained by using UltraClean Microbial DNA Extraction Kit (MoBio Laboratories). The genome sequencing, assembly and automatic annotation of a pure culture from soda lakes and of a metagenome from a highly enriched salt lake culture was performed by BaseClear (Leiden, The Netherlands) using a combination of Illumina and PackBio platforms. Kmer tetranucleotide frequency analysis was used to identify contigs that are likely belong to HMET1 (meta)genome. Genome completeness has been estimated as described previously 48 (link).
Ultraclean microbial dna extraction kit
Manufactured by Qiagen
Sourced in United States
The UltraClean Microbial DNA Extraction Kit is a laboratory equipment product designed for the extraction and purification of microbial DNA from various sample types. It provides a reliable and efficient method for isolating high-quality DNA for downstream applications.
Automatically generated - may contain errors
Lab products found in correlation
4 protocols using ultraclean microbial dna extraction kit
1
Genomic DNA Extraction and Metagenome Sequencing from Soda and Salt Lakes
2
Genomic DNA Extraction and Metagenome Sequencing from Soda and Salt Lakes
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
The genomic DNA from pure and highly enriched cultures was obtained by using UltraClean Microbial DNA Extraction Kit (MoBio Laboratories). The genome sequencing, assembly and automatic annotation of a pure culture from soda lakes and of a metagenome from a highly enriched salt lake culture was performed by BaseClear (Leiden, The Netherlands) using a combination of Illumina and PackBio platforms. Kmer tetranucleotide frequency analysis was used to identify contigs that are likely belong to HMET1 (meta)genome. Genome completeness has been estimated as described previously 48 (link).
3
Microbial DNA Extraction and Multiplatform Sequencing
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Genomic DNA extraction was performed using the UltraClean Microbial DNA Extraction Kit (MoBio Laboratories, Carlsbad, USA). DNA quality was assessed by fluorescence quantification using the QuantiFluor® ONE dsDNA System kit (Promega) on a Quantus device (Promega). Also, integrity was verified by 1% agarose gel and purity according to 260/280 and 260/230 absorption ratios. The sample was divided into two and sequencing using Illumina and Oxford Nanopore Technologies (ONT) technologies. The Illumina library was prepared with 2x150bp fragments using the Nextera XT DNA Sample Prep kit (Illumina, San Diego, CA) and sequenced on an Illumina MiSeq platform. The ONT library was prepared using the Rapid Sequencing kit SQK-RBK004 and sequenced on the MinION platform of the Extreme Environments Biotechnology Lab (Universidad de La Frontera, Chile), according to the manufacturer’s recommendations and using the MinKNOW software v.4.0.20. The basecalling of the ONT reads was performed with Guppy v3.1.5 software.
4
Genomic Analysis of Streptomyces sp. ANT_B131
Check if the same lab product or an alternative is used in the 5 most similar protocols
+ Expand
Whole genome sequencing of the Streptomyces sp. ANT_B131 was performed to evaluate the encoded potential of secondary metabolites production related to biosynthetic gene clusters (BGCs) in this strain. The genomic DNA was performed with UltraClean Microbial DNA Extraction Kit (Mo Bio Laboratories, Carlsbad, USA). Paired-end libraries were prepared followed by 2 × 251 bp sequencing on Illumina HiSeq platform. The quality of the reads were determined using FastQC (https://www.bioinformatics.babraham.ac.uk/projects/fastqc/) and ltered with Trimmomatic 3.0 27 . The assembled was performed with SeqMan NGen version 14.0 software (DNASTAR, Inc., WI, USA) and the quality evaluated by Quast 4.0 28 . The contigs were realign using MAUVE 29 and Streptomyces albido avus J1074 genome (accession number PRJNA180996) was used as reference genome. The genome was annotated by NCBI Prokaryotic Genome Annotation Pipeline (PGAP) 30 , and the Rapid Annotations using Subsystems Technology (RAST) 31 , PATRIC 32 , and the completeness was performed by BUSCO 33 .
About PubCompare
Our mission is to provide scientists with the largest repository of trustworthy protocols and intelligent analytical tools, thereby offering them extensive information to design robust protocols aimed at minimizing the risk of failures.
We believe that the most crucial aspect is to grant scientists access to a wide range of reliable sources and new useful tools that surpass human capabilities.
However, we trust in allowing scientists to determine how to construct their own protocols based on this information, as they are the experts in their field.
Ready to get started?
Sign up for free.
Registration takes 20 seconds.
Available from any computer
No download required
Revolutionizing how scientists
search and build protocols!