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Genome sequence of the type strain CLIB 1764T (= CBS 14374T) of the yeast species Kazachstania saulgeensis isolated from French organic sourdough.

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TLDR
The high quality genome sequence of a monosporic segregant of the type strain of this species, CLIB 1764T (= CBS 14374T), is reported and contains 5326 putative protein-coding genes, excluding pseudogenes and transposons.
Abstract
Kazachstania saulgeensis is a recently described species isolated from French organic sourdough. Here, we report the high quality genome sequence of a monosporic segregant of the type strain of this species, CLIB 1764T (= CBS 14374T). The genome has a total length of 12.9 Mb and contains 5326 putative protein-coding genes, excluding pseudogenes and transposons. The nucleotide sequences were deposited into the European Nucleotide Archive under the genome assembly accession numbers FXLY01000001-FXLY01000017.

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Bakery yeasts, a new model for studies in ecology and evolution.

TL;DR: The purpose of this review is to show that bakery yeast species are interesting models for studying domestication and other evolutionary and ecological processes, and can contribute much to the fundamental understanding of speciation, evolutionary dynamics, and community assembly.
Journal ArticleDOI

Omics approaches to understand sourdough fermentation processes.

TL;DR: Of all methodologies applied, metagenetics is the most used one to analyse sourdoughs, allowing to elucidate their microbial structure, albeit that it is based on the sequencing of a very small part of whole-community DNA.
Journal ArticleDOI

Fungal Species Diversity in French Bread Sourdoughs Made of Organic Wheat Flour.

TL;DR: The fungal diversity of a typical food fermented product, sourdough bread, is described and Saccharomyces cerevisiae, known as “baker’s yeast,” was identified as the dominant species in only one sourd Dough, highlighting the need to maintain different traditional food practices to conserve microbial diversity.
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Predominant yeasts in the sourdoughs collected from some parts of Turkey.

TL;DR: Although collected sourdoughs were produced without using baker's yeast, S. cerevisiae was the most frequently isolated yeast species, which can be related to the contamination of the bakery environment with commercial baker’s yeast during the production of other bakery products.
References
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Journal ArticleDOI

Fast and accurate short read alignment with Burrows–Wheeler transform

TL;DR: Burrows-Wheeler Alignment tool (BWA) is implemented, a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps.
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Trimmomatic: a flexible trimmer for Illumina sequence data

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tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.

TL;DR: A program is described, tRNAscan-SE, which identifies 99-100% of transfer RNA genes in DNA sequence while giving less than one false positive per 15 gigabases.
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SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler

TL;DR: This work provides an updated assembly version of the 2008 Asian genome using SOAPdenovo2, a new algorithm design that reduces memory consumption in graph construction, resolves more repeat regions in contig assembly, increases coverage and length in scaffold construction, improves gap closing, and optimizes for large genome.
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