Biology subjects

Uelze, L.

Publications and source records attributed to Uelze, L..

4 recordsLinked to original sources

bioRxiv2026

The genome sequence of Seabra's wing-gland bat, Cistugo seabrae Thomas, 1912

We present a genome assembly from a female Cistugo seabrae (Seabras wing-gland bat; Chiroptera; Cistugidae). The genome sequence is 1.9 gigabases (Gb) in span. The majority of the assembly is scaffolded into 25 chromosomal pseudomolecules, with the XX chromosomes assembled. The assembly has a contig N50 of 51.9 Mb and a scaffold N50 of 91.4 Mb. Species taxonomyEukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Laurasiatheria; Chiroptera; Yangochiroptera; Vespertilionoidea; Cistugidae; Cistugo; Cistugo seabrae Thomas, 1912 (Teeling et al., 2005; Bickham et al., 2004; Lack et al., 2010).

genomics↗

bioRxiv2026

Genomic analyses demonstrate the absence of genetic sex determination in the dioecious conifer Taxus baccata

Hundreds of plant lineages have independently evolved dioecy, i.e., separation of female and male flowers on different individuals. In all dioecious plants investigated at the molecular level to date, sex is determined genetically through a sex-determining region (SDR). SDRs have mostly been studied in angiosperms, although dioecy is relatively more common among gymnosperms. Here, we investigate sex determination in the gymnosperm Taxus baccata. We assembled four haplotype-resolved chromosome-level genomes for one female and one male tree, with an average size of 10.04 Gb, and generated resequencing data for 100 phenotypically sexed individuals. Strikingly, k-mer analyses, genome-wide association studies and differential coverage analyses demonstrate the absence of an SDR in the T. baccata genome. This indicates a non-genetic mechanism of sex determination, most likely via a sex-specific epiallele. Given that T. baccata is the first species studied among a large group of conifers, our findings suggest that such a mechanism might be widespread.

plant biology↗

bioRxiv2022

An analysis of LysM domain function in LytE when fulfilling the D,L-endopeptidase requirement for viability in Bacillus subtilis

The D,L-endopeptidase requirement states that Bacillus subtilis requires either the activity of the LytE or the CwlO enzyme for viability, therefore proving that these two enzymes can complement for each other despite their very different N-terminal domains. Here, we show that another D,L-endopeptidase, LytF, can also fulfill the D,L-endopeptidase requirement for viability, when expressed from the cwlO promoter. Both LytE and LytF contain N-terminally located LysM domains, three and five respectively. However, cells expressing another very similar D,L-endopeptidase CwlS, with four LysM domains were not viable. This led us to investigate whether a LytE protein with any one of its three LysM domains permuted can fulfill the D,L-endopeptidase requirement for viability. We found that the three LysM domains are not functionally equivalent and that the N-terminally located LysM domain plays a greater role for functioning of the LytE enzyme than the subsequent domains. Based on an investigation of orthologous enzymes in 19 B. subtilis species we propose an evolutionary model describing the development of the LytE-, CwlS- and LytF-type D,L-endopeptidases and their LysM domain repeats. In summary, these results show that the LytE enzyme has been optimized to fulfill the D,L-endopeptidase requirement for cell viability of B. subtilis with regard to the number and properties of LysM domains that mediate peptidoglycan-binding.

genomics↗

bioRxiv2020

German-wide interlaboratory study compares consistency, accuracy and reproducibility of whole-genome short read sequencing

We compared the consistency, accuracy and reproducibility of next-generation short read sequencing between ten laboratories involved in food safety (research institutes, state laboratories, universities and companies) from Germany and Austria. Participants were asked to sequence six DNA samples of three bacterial species (Campylobacter jejuni, Listeria monocytogenes and Salmonella enterica) in duplicate, according to their routine in-house sequencing protocol. Four different types of Illumina sequencing platforms (MiSeq, NextSeq, iSeq, NovaSeq) and one Ion Torrent sequencing instrument (S5) were involved in the study. Sequence quality parameters were determined for all data sets and centrally compared between laboratories. SNP / and cgMLST calling were performed to assess the reproducibility of sequence data collected for individual samples. Overall, we found Illumina short read data to be more accurate and consistent than Ion Torrent sequence data, with little variation between the different Illumina instruments. Two laboratories with Illumina instruments submitted sequence data with lower quality, probably due to the use of a library preparation kit, which shows difficulty in sequencing low GC genome regions. Differences in data quality were more evident after assembling short reads into genome assemblies, with Ion Torrent assemblies featuring a great number of allele differences to Illumina assemblies. Clonality of samples was confirmed through SNP calling, which proved to be a more suitable method for an integrated data analysis of Illumina and Ion Torrent data sets, than cgMLST calling.

genomics↗