2018
DOI: 10.1534/g3.117.300357
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Unintended Side Effects of Transformation Are Very Rare in Cryptococcus neoformans

Abstract: Received wisdom in the field of fungal biology holds that the process of editing a genome by transformation and homologous recombination is inherently mutagenic. However, that belief is based on circumstantial evidence. We provide the first direct measurement of the effects of transformation on a fungal genome by sequencing the genomes of 29 transformants and 30 untransformed controls with high coverage. Contrary to the received wisdom, our results show that transformation of DNA segments flanked by long targe… Show more

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Cited by 14 publications
(12 citation statements)
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“…The quality of the reads was evaluated by FastQC ( 107 ). Fastq files were aligned to the KN99 genome ( 108 ) using NextGenMap 0.5.3 ( 109 ). SAM files were converted to bam, reads were sorted and indexed, and read duplicates were removed from the final bam files using SAMtools ( 110 ).…”
Section: Methodsmentioning
confidence: 99%
“…The quality of the reads was evaluated by FastQC ( 107 ). Fastq files were aligned to the KN99 genome ( 108 ) using NextGenMap 0.5.3 ( 109 ). SAM files were converted to bam, reads were sorted and indexed, and read duplicates were removed from the final bam files using SAMtools ( 110 ).…”
Section: Methodsmentioning
confidence: 99%
“…For strain construction, we utilized a split-marker strategy (41) to generate the prerequisite DNA for biolistic transformation (42, 43) of the C. neoformans KN99α parent strain (44).…”
Section: Methodsmentioning
confidence: 99%
“…For strain construction, we used a split-marker strategy ( 50 ) with biolistic transformation of the C. neoformans KN99α strain ( 41 ) and confirmed all candidate transformants by PCR and the pattern of drug resistance ( 51 ). We first generated two independent fzo1 deletion strains by replacing FZO1 with a nourseothricin (NAT) resistance marker.…”
Section: Methodsmentioning
confidence: 99%