Hannele Lindqvist-Kreuze

Hannele Lindqvist-Kreuze
International Potato Center · Genetics Genomics and Crop Improvement

Doctor of Philosophy

About

61
Publications
15,964
Reads
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1,163
Citations
Additional affiliations
October 2011 - March 2015
Consultative Group on International Agricultural Research
Position
  • Biotic stress geneticist
August 1997 - February 2003
Swedish University of Agricultural Sciences
Position
  • PhD Student
December 1996 - July 1997
University of Helsinki
Position
  • Researcher

Publications

Publications (61)
Article
Full-text available
Potato virus Y (PVY) and Phytophthora infestans (Mont.) de Bary that causes potato late blight (LB), pose serious constraints to cultivated potatoes due to significant yield reduction, and phenotyping for resistance remains challenging. Breeding operations for vegetatively propagated crops can lead to genotype mislabeling that, in turn, reduces gen...
Article
Full-text available
The identification of environmentally-stable and globally-predictable resistance to potato late blight is challenged by the clonal and polyploid nature of the crop and the rapid evolution of the pathogen. A diversity panel of tetraploid potato germplasm bred for multiple resistance and quality traits was genotyped by genotyping by sequencing (GBS)...
Article
Full-text available
Dihaploid production from elite tetraploid cultivars is key to both traditional and novel breeding approaches that seek to simplify potato genetics. For this purpose, efficient and widely compatible haploid inducers (HIs) are needed. We compared PL-4, a new HI developed at the International Potato Center, to known HIs IvP101 and IvP35. By pollinati...
Article
Late blight disease caused by an Oomycete Phytophthora infestans is a major constraint to potato production and is causing significant yield losses in Ethiopia. This study was conducted to characterize the genetic diversity of the pathogen population in the major potato growing regions Awi, East Hararghe, South Gondar, West Arsi, West Gojjam and We...
Article
Full-text available
Crowdsourced citizen science is an emerging approach in plant sciences. The triadic comparison of technologies (tricot) approach has been successfully utilized by demand-led breeding programmes to identify varieties for dissemination suited to specific geographic and climatic regions. An important feature of this approach is the independent way in...
Article
Full-text available
Key message: Polypoid crop breeders can balance resources between density and sequencing depth, dosage information and fewer highly informative SNPs recommended, non-additive models and QTL advantages on prediction dependent on trait architecture. The autopolyploid nature of potato and sweetpotato ensures a wide range of meiotic configurations and...
Article
Full-text available
Late blight is considered the most renowned devastating potato disease worldwide. Resistance gene (R)-based resistance to late blight is the most effective method to inhibit infection by the causal agent Phytophthora infestans. However, the limited availability of resistant potato varieties and the rapid loss of R resistance, caused by P. infestans...
Article
Full-text available
Potato ‐ Solanum tuberosum L. ‐ is one of the world’s most important crops, facing major challenges due to climatic changes. To investigate the effects of intermittent drought on the natural variability of plant morphology and tuber metabolism in a novel potato association panel, composed of 258 varieties, an augmented block design field study was...
Preprint
Full-text available
The autopolyploid nature of potato and sweetpotato ensures a wide range of meiotic configurations and linkage phases leading to complex gene action and pose problems in genotype data quality and genomic selection analyses. We used a 315-progeny biparental population of hexaploid sweetpotato and a diversity panel of 380 tetraploid potato, genotyped...
Preprint
Full-text available
The identification of environmentally stable and globally predictable resistance to potato late blight is challenged by the crop’s clonal and polyploid nature and the pathogen’s rapid evolution. Genome-wide analysis (GWA) of multi-environment trials can add precision to breeding for complex traits. A diversity panel of tetraploid potato germplasm b...
Article
Elucidating and improving the nutritional value of staple crops is an important focus in breeding programs. Hence, wild and cultivated potatoes have been metabolite profiled to assess metabolic plasticity present in potato tubers and changes that occur in these after cooking. The present data highlighted metabolic similarities of certain wild speci...
Chapter
Full-text available
This chapter discusses the major potato diseases worldwide: late blight, early blight, wart, and powdery scab. Late blight, caused by the oomycete Phytophthora infestans, continues to be the main biotic constraint of potato production. Annual losses have been estimated to be about €6.1 billion, with major consequences to food security, especially i...
Article
The genetic diversity of the late blight pathogen Phytophthora infestans infecting cultivated potato and alternative hosts growing in the proximity of fields in the main potato growing areas of the Peruvian Andes was characterized using collections from 1997‐2013 as reference. The Peruvian P. infestans population including the old and the currently...
Poster
Full-text available
Most commercially cultivated potato varieties are tetraploid (2n=4x=48), primarily derived from the Solanum tuberosum Group tuberosum genome, combined with variable levels of wild and landrace introgressions. Tetraploid potato has high levels of heterozygosity, as well as complex genetics arising from being an outcrossing autopolyploidy. To that en...
Article
Full-text available
Background: Outbreaks caused by asexual lineages of fungal and oomycete pathogens are a continuing threat to crops, wild animals and natural ecosystems (Fisher MC, Henk DA, Briggs CJ, Brownstein JS, Madoff LC, McCraw SL, Gurr SJ, Nature 484:186-194, 2012; Kupferschmidt K, Science 337:636-638, 2012). However, the mechanisms underlying genome evolut...
Article
Full-text available
Breeding in the CGIAR Research Program on Roots, Tubers and Bananas (RTB) targets highly diverse biotic and abiotic constraints, whilst meeting complex end-user quality preferences to improve livelihoods of beneficiaries in developing countries. Achieving breeding targets and increasing the rate of genetic gains for these vegetatively propagated cr...
Article
Full-text available
Following the often short-lived protection that major nucleotide binding, leucine-rich-repeat resistance genes offer against the potato pathogen Phytophthora infestans, field resistance was thought to provide a more durable alternative to prevent late blight disease. We previously identified the QTL dPI09c on potato chromosome 9 as a more durable f...
Article
Full-text available
Late blight has been the most devastating potato disease worldwide. The causal agent, Phytophthora infestans, is notorious for its capability to rapidly overcome host resistance. Changes in the expression pattern and the encoded protein sequences of effector genes in the pathogen are responsible for the loss of host resistance. Among numerous effec...
Article
Full-text available
The Avr avirulence gene of Phytophthora infestans and R gene of the potato are the genetic components of the gene-for-gene interaction resulting in host plant resistance. This effector-triggered immunity has been recently exploited to generate extreme resistance to late blight in potato by genetic engineering. The choice of the R genes, their numbe...
Article
Full-text available
The current bacterial wilt infestation level in the potato fields in the Peruvian Andes was investigated by collecting stem samples from wilted plants and detecting Ralstonia solanacearum. In total 39 farmers’ fields located in the central and northern Peru between the altitudes 2111 and 3742 m above sea level were sampled. R. solanacearum was dete...
Preprint
Full-text available
Outbreaks caused by asexual lineages of fungal and oomycete pathogens are an expanding threat to crops, wild animals and natural ecosystems (Fisher et al. 2012, Kupferschmidt 2012). However, the mechanisms underlying genome evolution and phenotypic plasticity in asexual eukaryotic microbes remain poorly understood (Seidl and Thomma 2014). Ever sinc...
Article
Full-text available
Potato (Solanum tuberosum L.) is nowadays one of the most important food crops. It is prone to the disease known Late blight caused by the oomycete pathogen Phytophthora infestans, which secrete a hundreds of effectors that act as virulence factors. Little is known of the diversity of virulence genes of the strains that belong to a clonally reprodu...
Article
Full-text available
The Rpi-blb2 gene (R gene) from the Mexican wild potato species, Solanum bulbocastanum, was introduced into the potato variety Desiree by agro-infection in order to confer resistance to late blight which is still the most important disease of the potato worldwide. A total of 148 putative transgenic events was obtained by selection based on hygromyc...
Article
Tree tomato, Solanum betaceum, is an Andean fruit crop previously shown to be attacked by Phytopthora andina in Ecuador and Colombia. Blight like symptoms were discovered on tree tomato plants in the central highlands of Peru at 2003 and shown to be caused by P. andina. Isolates of P. andina collected from three different plantations in Peru during...
Article
Full-text available
Background Tuber appearance is highly variable in the Andean cultivated potato germplasm. The diploid backcross mapping population ‘DMDD’ derived from the recently sequenced genome ‘DM’ represents a sample of the allelic variation for tuber shape and eye depth present in the Andean landraces. Here we evaluate the utility of morphological descriptor...
Conference Paper
Full-text available
Allelic variability and expression of effectors Avr-blb1, Avr-vnt1 and Avr- blb2 were analyzed in Phytophthora infestans isolates from Peru and Uganda in order to predict the functionality and durability of the resistance on transgenic potato containing RB, Rpi-Vnt1 and Rpi-Blb2 genes. For Avr-blb1, most isolates of current pathogen population in P...
Article
Full-text available
The aim of this study was to increase marker density in a previously identified late blight resistance QTL in a diploid potato population. SSR markers from the reference potato genome sequence were located by e-PCR in the QTL region in the chromosome 9 genetic map of the diploid potato population B3C1HP, and utilized to identify more candidate gene...
Conference Paper
Full-text available
Note: We were made aware of a naming conflict with a prior similar tool; therefore we renamed our tool to QuiGMap. Genetic maps are an important visual tool to summarize and explore genetic data. As genetic markers sets get more dense it is more and more important that the graphical user interface of a genetic map viewer is fast. Limitations in th...
Data
SUMMARY Oomycetes form a deep lineage of eukaryotic organisms that includes a large number of plant pathogens which threaten natural and managed ecosystems.We undertook a survey to query the community for their ranking of plant-pathogenic oomycete species based on scientific and economic importance. In total, we received 263 votes from 62 scientist...
Article
Full-text available
Oomycetes form a deep lineage of eukaryotic organisms that includes a large number of plant pathogens which threaten natural and managed ecosystems. We undertook a survey to query the community for their ranking of plant‐pathogenic oomycete species based on scientific and economic importance. In total, we received 263 votes from 62 scientists in 15...
Article
Full-text available
Ten potato genotypes with field resistance to bacterial wilt were evaluated for resistance to five strains of Ralstonia solanacearum belonging to biovars 1, 2A, 2T and 3 (phylotypes I and II) under greenhouse conditions. The plants were inoculated by pouring bacterial suspension into the soil and wilt incidence was recorded weekly. Stems and tubers...
Article
Full-text available
Oomycetes form a deep lineage of eukaryotic organisms that includes a large number of plant pathogens that threaten natural and managed ecosystems. We undertook a survey to query the community for their ranking of plant pathogenic oomycete species based on scientific and economic importance. In total, we received 263 votes from 62 scientists in 15...
Article
Full-text available
Oomycetes form a deep lineage of eukaryotic organisms that includes a large number of plant pathogens which threaten natural and managed ecosystems. We undertook a survey to query the community for their ranking of plant-pathogenic oomycete species based on scientific and economic importance. In total, we received 263 votes from 62 scientists in 15...
Conference Paper
Full-text available
In the Peruvian highlands, the currently dominating strains of Phytophthora infestans infecting cultivated potato belong to the EC1 clonal lineage. Strains vary in virulence composition and aggressiveness and typically different strains are found from the quantitatively resistant varieties than from the susceptible ones. Therefore in this study we...
Article
Full-text available
Potato genotypes from a breeding population adapted to tropical highlands were analyzed for the stability of the late blight resistance and also for marker-phenotype association. We harmonized the historical evaluation data consisting of observations spanning six years from two field sites utilizing a resistance scale (sAUDPC) constructed by compar...
Conference Paper
Understanding the genetic architecture of complex traits of agronomical importance is key to improving them to enhance the performance of crops. Appropriate plant material, available genotypic resources and segregation of traits of interest, multi-environment, multi-year trials and best database management ensure rapid and efficient results. In ord...
Article
Full-text available
Background Conserved ortholog set (COS) markers are an important functional genomics resource that has greatly improved orthology detection in Asterid species. A comprehensive list of these markers is available at Sol Genomics Network (http://solgenomics.net/) and many of these have been placed on the genetic maps of a number of solanaceous specie...
Article
A resistance gene analog (RGA)-derived sequence-characterized amplified region (SCAR) marker was successfully developed based on sequence homology with disease resistance genes of an AFLP molecular marker tightly linked to the Rl adg gene of Solanum tuberosum ssp. andigena. The new marker was designated as ‘RGASC850’ (RGA-derived SCAR) based on the...
Conference Paper
Conserved ortholog set (COS) markers are useful for genetic mapping across diverse taxa, including the Solanaceae. We amplified over 300 COS markers from diverse set of Solanum germplasm, sequenced them and aligned into the whole genome sequence of potato. We also mapped a set of COS markers genetically using three diploid interspecific Solanum cro...
Article
Full-text available
A large number of quantitative trait loci (QTL) for resistance to late blight of potato have been reported with a "conventional" method in which each phenotypic trait reflects the cumulative genetic effects for the duration of the disease process. However, as genes controlling response to disease may have unique contributions with specific temporal...
Article
The levels of genotypic and genetic variation were estimated in six natural populations of arctic bramble (Rubus arcticus L. subsp. arcticus) in Finland. Using three primer combinations, a total of 117 amplified fragment length polymorphisms (AFLP) were found. The results were highly reproducible and allowed identification of 78 genets among the 12...
Article
Full-text available
Two Solanum genotypes, a wild relative of cultivated potato S. cajamarquense (Cjm) and an advanced tetraploid clone B3C1 (B3), were inoculated with two Phytophthora infestans isolates and leaves were sampled at 72 and 96 h after inoculation. Gene expression in the inoculated versus noninoculated samples was monitored using the Institute of Genomic...
Article
Six six-row Nordic spring barley genotypes (Hordeum vulgare L.) were assessed in the field in Finland (1994 and 1995) for resistance to Rhynchosporium secalis (Oud.) J.J. Davis, the causal pathogen of scald, in artificially inoculated plots. The barleys were known not to contain major genes for resistance to scald and the purpose of these experimen...
Article
An outbreak of a dryberry disease caused by Peronospora sparsa (syn. P. rubi) occurred in plantations of arctic bramble (Rubus arcticus subsp. arcticus) in Finland in the middle of 1990s. The disease persists and is most severe in cool and rainy summers. The disease has not been encountered in northern Sweden where cultivars (R. arcticus nothosubsp...
Article
Pycnidia containing conidia characteristic of Phoma spp. and pseudothecia containing ascospores characteristic of Didymella applanata were isolated from edges of expanding stem lesions and dead stems of wilted cultivated hybrid arctic bramble plants (Rubus arcticus nothossp. stellarcticus) in Sweden in 1998 and 1999. The fungi were morphologically...
Article
Downy mildew caused by Peronospora sparsa (syn. P. rubi) is a serious threat to commercial cultivation of arctic bramble (Rubus arcticus subsp. arcticus) in Finland. P. sparsa is distributed throughout the country in cultivated and wild arctic bramble and in cloudberry (R. chamaemorus). A total of 36 isolates of P. sparsa collected from these hosts...
Article
In 1994 to 1996, large yield losses were reported in cultivated arctic bramble (Rubus arcticus) due to berries drying in the middle of the growing season in the entire cultivation area (62 degrees to 66 degrees N) in Finland. Interveinal, angular, purple-red lesions on leaves are associated with the dryberry disease. Cultivations of arctic bramble...
Article
Full-text available
Elicitins are a family of structurally related proteins that induce hypersensitive response in specific plant species. Two Phytophthora infestans cDNAs, inf2A and inf2B, potentially encoding novel elicitin-like proteins, were isolated from a cDNA library made from infected potato tissue. Multiple sequence alignments and phylogenetic analyses of 19...
Article
Twenty Finnish isolates of Rhynchosporium secalis (Oud.) J.J. Davis, the causal agent of scald, were taken from infected barley (Hordeum vulgare L.) plants and inoculated on to seedlings of a differential series of barley containing a range of major genes for resistance to the fungus, as well as on to six Nordic 6-row spring barleys and three winte...
Article
Thesis (doctoral)--Swedish University of Agricultural Sciences, 2002. Includes bibliographical references.

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Projects

Projects (3)
Project
-determine the structure of Phytopthora infestans and Ralstonia solanacearum populations in Peru -identification alternative Solanaceous hosts of Phytophthora -capacity building of Peruvian national institutes in techniques of collection isolation and maintaining these pathogens as well as their characterization using molecular methods
Project
Panel of diverse, elite potato clones genotyped and phenotyped for key traits: bulking based maturity, virus resistance, late blight resistance and drought tolerance. Over 360 potato clones from CIP breeding program are being evaluated in multi environment trials in China, Ethiopia and Peru with the aim of linking genotypes to phenotypes and facilitating NARS access to agile potato varieties. With the financial support of the Federal Ministry for Economic Cooperation and Development, Germany. Project duration 2015-2017.