Journal: BMC Genomics

Article Title: Chromosome-level genome assembly of trypanosomatid parasite Lotmaria passim links chromosome duplication and divergence with infection of honey bees

doi: 10.1186/s12864-025-12082-y

Figure Lengend Snippet: Phylogenetic placement and proportions of the L. passim genome and paralogous Chromosomes 5 and 6 syntenic with genomes of selected relatives. A Phylogenomic tree depicting relationships between L. passim , L. pyrrhocoris , and other trypanosomatids in the Leishmaniianae subfamily. The tree was inferred from protein sequences of 2530 single-copy orthologs. Our assembly is labeled ‘BRL (2024)’. The position of the ‘SF’ strain used for the first draft genome assembly is also shown . For C. bombi and C. expoeki , nodes are shown for both the original published annotations by Schmid-Hempel and colleagues (‘SH’ ) and independent annotations of the same assemblies created in a review of trypanosomatid phylogenomics by Kostygov and colleagues (‘Kos’ ). All nodes had support values of 1 based on 1,000 resamples. B Synteny of paralogous chromosomes and genome overall. Y-axis shows species analyzed; X-axis represents proportion of the L. passim genomic of chromosome region covered by synteny blocks. Shading of bars corresponds to the region quantified. “Total” indicates the entire nuclear genome

Article Snippet: Our group recently published a high-quality, chromosome-level assembly of the BRL (Bee Research Lab) type strain (American Type Culture Collection isolate PRA-422, GCA_037349495.1) of L. passim [ ].

Techniques: Labeling

Journal: BMC Genomics

Article Title: Chromosome-level genome assembly of trypanosomatid parasite Lotmaria passim links chromosome duplication and divergence with infection of honey bees

doi: 10.1186/s12864-025-12082-y

Figure Lengend Snippet: Circular representation of Lotmaria passim BRL (2024) genome assembly. Radial segments correspond to the 31 nuclear chromosomes, numbered by size from largest to smallest. Outer ring: sequencing depth. Gray points show base-level read depth, subsampled at 100 bp intervals. Blue line trace represents 1 Kb moving average. Large red circle represents the chromosome-level median. Faint scatter of gray points with roughly half the read depth of the chromosome overall suggests heterozygous sites. Concentric yellow, orange, and red lines represent 50%, 100%, and 150% of the median chromosome-level depth; this corresponds to expected depths for monosomic, disomic, and trisomic chromosomes, respectively. The paralogous Chromosomes 5 and 6 appear as disomic chromosomes with distinct coverage traces. Inner ring: relative density of coding regions (percent of each 10 Kb interval covered by predicted exons), colored by strand (blue: positive, orange: negative), suggesting long stretches of polycistronic genes on the same strand and strand-biased gene arrangement on Chromosomes 5 and 6. Opaque red link between Chromosomes 5 and 6 indicates the similarity between these two regions

Article Snippet: Our group recently published a high-quality, chromosome-level assembly of the BRL (Bee Research Lab) type strain (American Type Culture Collection isolate PRA-422, GCA_037349495.1) of L. passim [ ].

Techniques: Sequencing