FIG 1.

Serratia marcescens ATCC 13880 transposon-insertion sequencing reveals genes important for in vitro growth. (A) S. marcescens genes binned by percentage of TA sites disrupted. Overlaid is the hidden Markov model-based analysis assignment (EL-ARTIST pipeline) of whether insertions within the gene are underrepresented, differ by domain within the gene (“domain”), or are found to be distributed neutrally within the gene. The left histogram peak contains predominantly underrepresented genes where insertions are tolerated in only a low percentage of sites. (B) Venn diagram illustrating overlap between S. marcescens ATCC 13880 (GenBank accession number CP072199) underrepresented genes (red) with E. coli K-12 underrepresented genes (yellow), with the K-12 KEIO collection as an additional comparator (blue). (C) Genes underrepresented in S. marcescens ATCC 13880 but not in E. coli K-12, either by EL-ARTIST analysis or by the analysis resulting from the KEIO collection. Clusters of orthologous genes (COG) categories of those genes are tabulated. (D) Lipid A 4-amino-4-deoxy-L-arabinose modification operon, demonstrating that transposon insertions are underrepresented (red) in arnD, arnE, and arnF. btuD and nlpC are genes flanking this operon.