Insights into the Genetic Determination of the Autotetraploid Potato Plant Height.

Plant height is an important characteristic, the modification of which can improve the ability of stress adaptation as well as the yield. In this study, genome-wide association analysis was performed for plant height traits in 370 potato cultivars using the tetraploid potato genome as a reference. A total of 92 significant single nucleotide polymorphism (SNP) loci for plant height were obtained, which were particularly significant in haplotypes A3 and A4 on chromosome 1 and A1, A2, and A4 on chromosome 5. Thirty-five candidate genes were identified that were mainly involved in the gibberellin and brassinolide signal transduction pathways, including the FAR1 gene, methyltransferase, ethylene response factor, and ubiquitin protein ligase. Among them, PIF3 and GID1a were only present on chromosome 1, with PIF3 in all four haplotypes and GID1a in haplotype A3. This could lead to more effective genetic loci for molecular marker-assisted selection breeding as well as more precise localization and cloning of genes for plant height traits in potatoes.

Impacts of invasive mussels on a large lake: Direct evidence from in situ control-volume experiments.

Invasive dreissenid mussels have reengineered many freshwater ecosystems in North America and Europe. However, few studies have directly linked their filter feeding activity with ecological effects except in laboratory tests or small-scale field enclosures. We investigated in situ grazing on lake seston by dreissenid mussels (mainly quagga mussel Dreissena rostriformis bugensis) using a 'control volume' approach in the nearshore of eastern Lake Erie in 2016. Flow conditions were measured using an acoustic Doppler current profiler, surrounded by three vertical sampling stations that were arranged in a triangular configuration to collect time-integrated water samples from five different depths. Seston variables, including chlorophyll a, phaeopigment, particulate organic carbon and nitrogen, and particulate phosphorus, along with stoichiometric ratios and water flow over mussel colonies, were considered when estimating grazing rates. We observed suboptimal flow velocity for mussel grazing, i.e., 0.028 m s-1 at 0.1 m above bottom (mab), and resuspension was deemed minimal. Water temperature (mean: 25.1 °C) and an unstratified water column were optimal for grazing. Concentration of seston was low (mean: 0.2 mg L-1 particulate organic carbon) and decreased from surface to lakebed where noticeable depletion was observed. Grazing rates calculated at discrete depths varied substantially among trials, with maximum rates occurring at 0.25 or 0.5 mab. Positive grazing rates were restricted to 0.5 mab and below, defining an effective grazing zone (0.1-0.5 mab) in which the flow velocity, seston concentration, and water depth were consistently and positively correlated with grazing rates of different lake seston variables. Horizontal changes in stoichiometric ratios of seston were strongly associated with grazing rates, revealing higher uptake of particulate phosphorus than nitrogen and carbon. Our study supports the nearshore phosphorus shunt hypothesis, which posits that dreissenid mussels retain phosphorus on the lake bottom and contribute to a wide range of ecological effects on freshwater ecosystems.

The autotetraploid potato genome provides insights into highly heterozygous species.

Potato (Solanum tuberosum L.) originated in the Andes and evolved its vegetative propagation strategy through short day-dependent tuber development. Herein, we present a high-quality, chromosome-scale reference genome sequence of a tetraploid potato cultivar. The total length of this genome assembly was 2.67 Gb, with scaffold N50 and contig N50 sizes of 46.24 and 2.19 Mb, respectively. In total, 1.69 Gb repetitive sequences were obtained through de novo annotation, and long terminal repeats were the main transposable elements. A total of 126 070 protein-coding genes were annotated, of which 125 077 (99.21%) were located on chromosomes. The 48 chromosomes were classified into four haplotypes. We annotated 31 506 homologous genes, including 5913 (18.77%) genes with four homologues, 11 103 (35.24%) with three homologues, 12 177 (38.65%) with two homologues and 2313 (7.34%) with one homologue. MLH3, MSH6/7 and RFC3, which are the genes involved in the mismatch repair pathway, were found to be significantly expanded in the tetraploid potato genome relative to the diploid potato genome. Genome-wide association analysis revealed that cytochrome P450, flavonoid synthesis, chalcone enzyme, glycosyl hydrolase and glycosyl transferase genes were significantly correlated with the flesh colours of potato tuber in 150 tetraploid potatoes. This study provides valuable insights into the highly heterozygous autotetraploid potato genome and may facilitate the development of tools for potato cultivar breeding and further studies on autotetraploid crops.