BackgroundInoculation of wheat plants with Puccinia triticina (Pt) spores activates a wide range of host responses. Compatible Pt interaction with susceptible Thatcher plants supports all stages of the pathogen life cycle. Incompatible interaction with TcLr9 activates defense responses including oxidative burst and micronecrotic reactions associated with the pathogen’s infection structures and leads to complete termination of pathogen development. These two contrasting host-pathogen interactions were a foundation for transcriptome analysis of incompatible wheat-Pt interaction.MethodsA suppression subtractive hybridization (SSH) library was constructed using cDNA from pathogen-inoculated susceptible Thatcher and resistant TcLr9 isogenic lines. cDNA represented steps of wheat-brown rust interactions: spore germination, haustorium mother cell (HMC) formation and micronecrotic reactions. All ESTs were clustered and validated by similarity search to wheat genome using BLASTn and sim4db tools. qRT-PCR was used to determine transcript levels of selected ESTs after inoculation in both lines.Results and discussionOut of 793 isolated cDNA clones, 183 were classified into 152 contigs. 89 cDNA clones and encoded proteins were functionally annotated and assigned to 5 Gene Ontology categories: catalytic activity 48 clones (54 %), binding 32 clones (36 %), transporter activity 6 clones (7 %), structural molecule activity 2 clones (2 %) and molecular transducer activity 1 clone (1 %).Detailed expression profiles of 8 selected clones were analyzed using the same plant-pathogen system. The strongest induction after pathogen infection and the biggest differences between resistant and susceptible interactions were detected for clones encoding wall-associated kinase (GenBank accession number JG969003), receptor with leucine-rich repeat domain (JG968955), putative serine/threonine protein kinase (JG968944), calcium-mediated signaling protein (JG968925) and 14-3-3 protein (JG968969).ConclusionsThe SSH library represents transcripts regulated by pathogen infection during compatible and incompatible interactions of wheat with P. triticina. Annotation of selected clones confirms their putative roles in successive steps of plant-pathogen interactions. The transcripts can be categorized as defense-related due to their involvement in either basal defense or resistance through an R-gene mediated reaction. The possible involvement of selected clones in pathogen recognition and pathogen-induced signaling as well as resistance mechanisms such as cell wall enforcement, oxidative burst and micronecrotic reactions is discussed.Electronic supplementary materialThe online version of this article (doi:10.1186/s12864-015-1932-3) contains supplementary material, which is available to authorized users.

Tropical cyclones (TC) are one of the main producers of clouds in the tropics and subtropics. Hence, most of the clouds in TCs are dense, with large water and ice content, and provide conditions conducive to investigate clouds’ impact on Radio Occultation (RO) measurements. Although the RO technique is considered insensitive to clouds, recent studies show a refractivity positive bias in cloudy conditions. In this study, we analyzed the RO bending angle sensitivity to cloud content during tropical cyclone seasons between 2007 and 2010. Thermodynamic parameters were obtained from the ERA-Interim reanalysis, whereas the water and ice cloud contents were retrieved from the CloudSat profiles. Our experiments confirm the positive mean RO refractivity bias in cloudy conditions that reach up to more than 0.5% at the geometric height of around 7 km. A similar bias but larger and shifted up is visible in bending angle anomaly (1.6%). Our results reveal that the influence of clouds is significant and can exceed the RO bending angle standard deviation for 21 out of 50 (42%) investigated profiles. Mean clouds’ impact is detectable between 9.0 and 10.5 km, while, in the case of single events, clouds in most of the observations are significant between 8 and 14 km. Almost 15% of the detectable clouds reach 16 km height, while the influence of the clouds below 5 km is insignificant. For more than half of the significant cases, the detection range is less than 3 km but for one observation this range spreads to 7–8 km.

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Abstract. Tropical cyclones (TC) are natural destructive phenomena, which affect wide tropical and subtropical areas every year. Although the correct prediction of their tracks and intensity has improved over recent years, the knowledge about their structure and development is still insufficient. The Global Navigation Satellite System (GNSS) radio occultation (RO) technique can provide a better understanding of the TC because it enables us to probe the atmospheric vertical structure with high accuracy, high vertical resolution and global coverage in any weather conditions. In this work, we create an archive of co-located TC best tracks and RO profiles covering the period 2001–2018 and providing a complete view of the storms since the pre-cyclone status to the cyclone disappearance. We collected 1822 TC best tracks from the International Best Track Archive for Climate Stewardship and co-located them with 48 313 RO profiles from seven satellite missions processed by the Wegener Center for Climate and Global Change. We provide information about location and intensity of the TC, RO vertical profiles co-located within 3 h and 500 km from the TC eye centre, and exact information about temporal and spatial distance between the TC centre and the RO mean tangent point. A statistical analysis shows how the archive covers all the ocean basins and all the intensity categories well. We finally demonstrate the application of this dataset to investigate the vertical structure for one TC example case. All the data files, separately for each TC, are publicly available in NetCDF format at https://doi.org/10.25364/WEGC/TC-RO1.0:2020.1 (Lasota et al., 2020).