---
# System prepended metadata

title: Assessment of Competitive Exclusion Potential of Bacteria Isolated from Commercial Lettuce Samples
tags: [CE_WGS]

---

# Overview of bioinformatic analysis pipeline
![](https://hackmd.io/_uploads/HkVUqj1Fn.png)

<center>

 Code is archived in [github repo](https://github.com/jlk666/CE_WGS).

</center>


# Quality Control of WGS Data
![](https://hackmd.io/_uploads/S1FC5Va_2.png)

![](https://hackmd.io/_uploads/BJi-sE6dh.png)

# Genome Similarity 
Signature of each WGS data was generated using [Sourmash](https://github.com/sourmash-bio/sourmash).
![](https://hackmd.io/_uploads/rJTd7zRu2.png)

## *Lactoccocus* isolates potential gene producing bacteriocin
![](https://hackmd.io/_uploads/Skl7jo1F2.png)
![](https://hackmd.io/_uploads/BkcTijktn.png)
The most significant hit was found in Nisin Z, which was documented to show promisingly effective [anti-microbial effects against clinically significant bacteria](https://www.futuremedicine.com/doi/10.2217/fmb-2019-0153).

## Rough validation results
![](https://hackmd.io/_uploads/SksAai1Kn.jpg)

