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BIOTECHNOLOGICAL
APPROACHES TO CROP
IMPROVEMENT IN THE DRY AREAS AT THE
INTERNATIONAL CENTER FOR AGRICULTURAL
RESEARCH IN THE DRY AREAS
Baum M
ABSTRACT
At the International
Center for Agricultural Research in the Dry Areas (ICARDA) biotechnology
is included in the crop improvement and genetic resources program.
Emphasis is given to the identification and exploitation of genetic
resources of improved stress resistance, particularly improved water
use efficiency. Non-radioactive DNA technology is being utilized
for fingerprinting genetic resources. Numerous molecular-marker
systems have also been used for genome mapping and gene-tagging.
Markers have already been identified, to be linked with traits of
agronomic importance. The technology available for using these markers
for marker-assisted selection (MAS) has also greatly improved. Fluorescent-labeled
allele-specific markers are being developed and can be used with
automated sequencers to allow the screening of thousands of lines
within a short period as required by breeding programs. The ability
to use MAS to pyramid genes will make this technology an essential
tool for breeders. Besides gene tagging and genome mapping, there
is considerable effort to characterize the pathogen populations
and to develop geographical distribution maps. These maps will allow
the deployment of effective host-plant resistance genes. In vitro
techniques are being used to overcome species barriers to introgress
agronomic traits of wild species into adapted cultivars. Embryo-
and ovule rescue techniques are being used for inter-specific and
generic hybridization programs. Somaclonal variation is exploited
from regenerants of Lathyrus explants to reduce neurotoxins in the
plant and seed tissue. Doubled haploid breeding is being used when
rapid solutions are required. Anther- and isolated microspore culture
systems are being used for the development of doubled haploid lines
for barley and wheat. DH breeding for the barley program is used
to develop mapping populations for drought tolerance. DH breeding
for the wheat programs is used specifically to introgress Hessian
fly resistance for North Africa and yellow rust resistance into
adapted germplasm. When variability for key traits is low, genetic
engineering is being used to incorporate new genes into plant materials.
Fungal and abiotic stress resistance is being engineered in chickpea
in cooperation with the University of Hannover, Germany and insect
and abiotic stress resistance is being engineered in lentils in
cooperation with the Center for Legumes in Mediterranean Agriculture
(CLIMA), Australia.
Key words:
SSR markers, doubled haploids, genetic engineering, drought
French
APPROCHES
BIOTECHNOLOGIQUES A L'AMELIORATION DES RECOLTES DANS LES ZONES SECHES
AU CENTRE INTERNATIONAL DE RECHERCHE AGRICOLE DANS LES ZONES SECHES
(INTERNATIONAL CENTER FOR AGRICULTURAL RESEARCH IN THE DRY AREAS)
RESUME
Au Centre
international de recherche agricole dans les zones sèches
(ICARDA), la biotechologie fait partie du programme d'amélioration
des récoltes et des ressources génétiques.
L'accent est mis sur l'identification et l'exploitation des ressources
génétiques en tant que source de résistance
améliorée aux pressions, notamment une amélioration
dans l'utilisation de l'eau. La technologie ADN non radioactive
est utilisée pour établir des systèmes de sélection
basée sur des marqueurs. Des techniques in vitro sont utilisées
pour surmonter la barrière des espèces afin d'introduire
des caractéristiques agronomiques d'espèces sauvages
dans des cultivars adaptés. La reproduction diploïde
est utilisée lorsque des solutions rapides sont nécessaires.
Lorsque la variabilité pour les caractéristiques clés
est faible, le génie génétique est utilisé
pour incorporer de nouveaux gènes dans les matières
végétales.
Mots
clés: marqueurs SSR, diploïdes, génie génétique,
sècheresse
INTRODUCTION
ICARDA, as
a member of the CGIAR (Consultative Group for International Agricultural
Research), was established with headquarters in, Aleppo, Syria,
in 1977 and charged with global responsibility for the improvement
of barley, lentil and faba bean. ICARDA also has regional responsibility
for the improvement of bread wheat, durum wheat, Kabuli chickpea
and pasture and forage crops. Within this broad mandate, ICARDA
aims to promote improved and more productive agriculture through
research and training activities conducted in cooperation with national
and regional research institutions. Specifically, the objectives
of ICARDA's Crop Improvement Program are summarized as follows:
- Development
of crop varieties with stable and substantially high yields under
limited rainfall (200mm to 600mm);
- Identification
and development of superior germplasm with tolerance to abiotic
stresses (drought, cold, heat and salt);
- Genetic
crop improvement to biotic stresses (virus, fungi, insects and
nematodes).
- Maintenance
and improvement of the nutritional quality of food crops;
- Development
of agronomic practices; and
- Training
scientists and technicians to improve the scientific capability
and food production capacity within the region.
ICARDA'S
STRATEGY IN BIOTECHNOLOGY
Biotic and
abiotic stresses are major limitations to yields of cereal and legume
crops in the West Asia and North Africa region. The objective of
the crop improvement program is to increase yield and yield stability
under variable arid and semi-arid conditions. Under these conditions
crop yields are generally low and vary greatly from year to year.
To improve the efficiency and effectiveness of the crop improvement
program, a biotechnology strategy addressing some of the most severe
limitations to crop improvement in WANA has been developed. The
implementation of the biotechnology strategy is incorporated within
ICARDA's Medium Term Plan.
Activity
1. Crop Germplasm Enhancement
Pre-breeding
and biotechnology: Emphasis will be given to the identification
and exploitation of genetic resources for sources of improved stress
resistance, particularly improved water use efficiency. Non-radioactive
DNA technology will be utilized to establish marker assisted selection
systems. In vitro techniques will be used to overcome species
barriers to introgress agronomic traits of wild species into adapted
cultivars. Doubled haploid breeding will be used when rapid solutions
are required. When variability for key traits is low, genetic transformation
will be employed to incorporate new genes into plant materials:
this work is being carried out in collaboration with advanced institutes:
for chickpea with the University of Hannover, Germany, for lentil
with the Center for Legumes in Mediterranean Agriculture (CLIMA),Australia
and in barley with the University of Hamburg, Germany.
Activity
2. Germplasm Collection and Conservation
Biodiversity
conservation at ICARDA responds to the Leipzig Global Plan of Action
for the Conservation and Sustainable Utilization of Plant Genetic
Resources of National Agricultural Research Systems (NARS) and to
the CGIAR stripe review of plant genetic resources. ICARDA holds
the largest gene bank in the Mediterranean region, holding approximately
20% of the germplasm in CGIAR centers. In the continued exploration
for genetic resources, emphasis will be given to the collection
of plant germplasm from low rainfall temperature and rangeland areas.
However, overall, the shift from collection and ex situ conservation
of plant germplasm to its characterization, evaluation, documentation
and will be accelerated to exploit the biodiversity held at ICARDA.
The adoption of DNA-marker technology and the formation of "core
collections" will improve the efficiency of germplasm collection
management and use. Increased attention will be given to the techniques
of in situ conservation through promoting improved resource
management in the dry areas.
The concept
of 'core' collections was initially proposed by Sir O. Frankel (1),
and later elaborated by other authors to promote the use of germplasm
collections. The idea is to select a small subset of gene bank accessions,
which would represent maximum genetic diversity of the entire collection.
Such a 'core' collection is widely distributed to researchers of
different profile to obtain comprehensive evaluation data on the
identical germplasm.
Selected
Biotechniques used at ICARDA
I. Tissue-culture
techniques
1. Doubled haploid breeding
2. Exploitation of somaclonal variation in Lathyrus
II. Molecular
marker techniques
1. DNA marker for fingerprinting diseases: Ascochyta
rabiei
2. Mapping host plant resistance traits related to dry
land agriculture
III. Genetic
transformation
IV. Training
I. TISSUE-CULTURED TECHNIQUES
1. Doubled
haploid breeding
The value of doubled-haploid (DH) line production for breeders is
the reduced time required to obtain homozygous populations. Regenerated
haploid plants of hybrids after colchicine doubling comprise a completely
homozygous population. Furthermore, with the introduction of DNA-marker
technology in plant breeding for gene tagging and genome-mapping,
DH lines represent the ideal plant material for the application
of this technology.
Anther- and
isolated microspore culture systems are being used for the development
of doubled haploid lines for barley and wheat at ICARDA [2]. DH
breeding for the barley program is used to develop mapping populations
for drought tolerance. DH breeding for the joined CIMMYT/ICARDA
spring bread wheat program is used specifically to introgress Hessian
fly resistance for North Africa [3] and yellow rust resistance [4]
into adapted germplasm. DH breeding for the joint Centro Internacional
de Mejoramiento de Maiz y Trigo (CIMMYT)/ ICARDA facultative and
winter wheat program is being used to introgress yellow rust resistance.
2. Use of
somaclonal variation in Lathyrus
Consumption of Lathyrus sativus seeds by humans and animals
has been limited by the presence of a neurotoxin known as ß-N-Oxalyl-L-,
- ß-Diaminopropionic Acid (ß-ODAP) in the seeds, which
when taken in large quantity can lead to "lathyrism" a
disease causing paralysis of the limbs. By making use of somaclonal
variation plants can be developed with a low concentration of the
neurotoxin, and thus make consumption by humans and animals in larger
amounts possible. Existing protocols for explant culture of L.
sativus have been used at ICARDA. Somaclones showed high variation
for morphological traits as well as for ß-ODAP [5].
II. THE
USE OF MOLECULAR MARKERS FOR CROP IMPROVEMENT
A number of
techniques i.e. microsatellites or simple sequence repeat (SSR)-based
DNA and amplified fragment length polymorphism (AFLP) DNA markers
are used for fingerprinting genetic resources in plants at ICARDA.
Expressed-sequence tags (EST) databases provide opportunities for
gene discovery, such databases may also provide a novel source of
microsatellites (SSRs) that are physically associated with coding
regions of the genome (EST-derived SSRs). Genomic SSRs [6-8] as
well as EST-derived SSRs [9,10] are currently being used to genotype
germplasm collections.
Numerous molecular-marker systems have also been used for genome
mapping and gene-tagging. Markers have already been identified to
be linked with traits of agronomic importance. Besides the efforts
of mapping and identifying host-plant resistance, there is considerable
effort to characterize the pathogen populations. If pathogenes can
be characterized by DNA markers and diagnostic markers be developed,
geographical distribution maps will allow the deployment of effective
host-plant resistance genes.
The technology
available for using these markers in marker-assisted selection (MAS)
has also greatly improved. Fluorescent-labeled allele-specific markers
can be used in automated systems such as automated sequencers to
allow the screening of thousands of lines within a short period
as required by breeding programs. The ability to use MAS to pyramid
genes will make this technology an essential tool for breeders.
1. DNA markers
for fingerprinting diseases: Ascochyta rabiei in Syria
Ascochyta
rabiei (Pass.) Labr. is the most severe fungal disease limiting
chickpea production, especially in the winter-grown chickpea areas
of the Mediterranean region. Conventionally, the population structure
of the pathogen is determined by pathogenicity surveys (pathogenic
variability) based on reaction on a set of differential cultivars.
Such a study in Syria revealed the occurrence of three pathotypes
for A. rabiei. Additionally, a set of microsatellite and Random
Amplified Polymorphic DNA (RAPD) markers were also used which lead
to the identification of suitable RAPD markers, allowing a more
precise determination of the pathotypes. All the surveys revealed
the predominance of a single genotype (genotype-H) in all the chickpea-growing
regions [11]. The genotype (pathotype III) is increasing its frequency
in all the chickpea-growing regions of Syria.
Despite thousands
of lines having been screened for resistance to all three pathotypes,
resistance is only available to pathotype I and II and some tolerance
to pathotype III. However, with suitable packages of integrated
disease management (planting date, fungicide sprays) is the successful
cultivation of chickpea possible. Furthermore, the availability
of markers for pathotype I and II allow the monitoring of the pathotype
distribution and to give recommendation for the planting of suitable
chickpea cultivars.
2. Mapping
host plant resistance traits in ICARDA mandated crops
DNA molecular
marker techniques allow construction of linkage maps for crops.
Together with statistical techniques these linkage maps can be used
to locate and estimate phenotypic effects of quantitative trait
loci (QTL) and the genes responsible for the expression of agronomic
traits. For a homozygous population derived from a cross with parents
contrasting in response to, for example, water, QTL analysis reveals
the approximate map location of loci associated with performance
under dry land conditions. This is then amenable to marker-assisted
selection using DNA markers flanking the identified QTLs.
Genetic improvement
of barley in stressful environments within WANA is rather slow due
to the frequency, timing, duration and severity of a number of climatic
stresses [12,13]. Additionally, powdery mildew (caused by Erysiphe
graminis DC. Ex Mérat f.sp. hordei Em. Marchal) and scald
(caused by Rynchosporium secalis (Oud.)J.J. Davies are important
foliar diseases in this region. In a population of random recombinant
inbred lines of Tadmor/Sel160 gene tags have been identified for
Powdery mildew, scald as well as for characters adapted to dry land
[14]. In the cross of barley variety 'Arta' with H. spontaneum,
the objective was to combine the yield potential of Arta with the
drought tolerance, earliness, acceptable cold tolerance, and the
ability to maintain plant height under drought of H. spontaneum
[15]. In the recombinant inbred population of this cross, QTLs for
grain yield, biological yield, plant height, and days-to-heading
were located on chromosome 3H. The plant height alleles of H. spontaneum
at this location directly influence biological yield and grain yield.
There is good correlation between plant height and root length,
which might be an important factor imparting drought tolerance in
the recombinants derived from the above crosses [16]. Closely linked
markers to disease resistance genes are being used to transfer resistance
genes in backcross programs. Markers identified for other agronomic
traits are also being tested for routine use and selection of better
alleles in germplasm collections.
Fusarium wilt
is economically the most destructive disease of lentil (Lens culinaris
Medik) and can cause up to 100% yield loss. Cold tolerance is an
important trait for winter lentil cultivation at high elevations.
Different DNA marker systems including Restriction Fragment Length
Polymorphism (RFLP), RAPD and Amplified Fragment Length Polymorphism
(AFLP) were used to construct a genetic linkage map of Lens sp [17].
F6-derived F8 recombinant inbred lines were genotyped with 257 morphological,
RFLP, RAPD and AFLP markers[18]. The linkage map was exploited to
identify markers linked to Fusarium wilt resistance and radiation-frost
tolerance [19, 20]. The population was evaluated for two seasons
for radiation-frost injury and three seasons for Fusarium wilt.
Both traits were monogenically inherited. Four RAPD markers linked
to the Fusarium wilt resistance locus were identified and located
in the present map. Likewise, one RAPD marker was linked with the
radiation-frost tolerance locus. Fine mapping is required to develop
more closely linked markers. If developed, traits such as Fusarium
resistance and radiation-frost tolerance will be transferred to
other adapted lines in backcross programs.
Chickpea yields
can also be increased considerably in low rainfall areas of West
Asia and North Africa by winter sowing instead of the traditional
spring sowing [21]. With improved cold tolerance, chickpea can be
planted in early spring or winter to better utilize winter rainfall.
Earlier sown chickpea escapes the terminal drought and heat stresses
in spring. For tagging host plant resistance genes in chickpea,
sequence-tagged-microsatellite-site (STMS) markers have been developed
and tested for genetic diversity analysis [9,11,22] and genome mapping
[23]. Host-plant resistance for Ascochyta blight is being
mapped in several populations and genetic backgrounds [24, 25].
Aim of the tagging programs is the to identify markers for marker-assisted
selection [26].
III. TRANSFORMATION
OF PLANTS WITH GENETICALLY ENGINEERED STRESS RESISTANCE GENES
The Center
is exploring the possibility of genetic transformation to achieve
improved tolerance to drought and other stresses in ICARDA mandated
crops. In order to use regional expertise available for genetic
transformation, ICARDA has entered into a cooperation agreement
with the Agricultural Genetic Engineering Research Institute (AGERI)
in Cairo, Egypt to exploit transformation systems for the improvement
of ICARDA mandated crops. In cooperation with the Center for Legumes
in Mediterranean Agriculture, Australia lentil lines are being transformed
with several different constructs for fungal resistance and for
improving drought tolerance. In cooperation with the University
of Hannover, Germany, and ICARDA, a chickpea transformation system
was developed that allows incorporation of resistance genes. The
protocol is being used at Hannover, AGERI and ICARDA to transform
chickpea lines with two types of fungal resistance genes and with
genes that improve drought tolerance. Transformations have been
confirmed by PCR analysis and Southern hybridization [27].
A major transcription
system that controls abscisic-acid-independent gene expression in
response to dehydration and low temperature has been described [28].
The system includes the DRE/CRT (dehydration-responsive element/C-repeat)
cis-acting elements and its DNA binding protein, DREB/CBF (DRE-binding
protein/C-repeat binding factor), which has an AP2 domain. Over-expression
of the cDNA encoding DREB1A in transgenic Arabidopsis plants activates
the expression of many genes and results in improved tolerance to
drought, salt loading, and freezing. The DREB constructs are being
used to test the effect of the Arabidopsis transcription factors
on ICARDA mandated crop plants.
SUPPORT
TO REGIONAL PROGRAMS IN BIOTECHNOLOGY
ICARDA aims
to assist breeders in West Asia and North Africa use up-to-date
molecular biology tools, such as tissue culture techniques, DNA
marker technology, and genetic engineering strategies, to develop
superior cultivars with increased and stable yield. The training
program includes individual non-degree training at ICARDA headquarters,
training in specialized training courses at headquarter or as an
in-country training course as well as MSc. or PhD training.
Through the
project "DEVELOPMENT OF BIOTECHNOLOGICAL RESEARCH IN THE ARAB
STATES", funded by the ARAB FUND FOR SOCIAL AND ECONOMIC DEVELOPMENT
(AFSED), ICARDA has supported the development of infrastructure
for biotechnology research in the national programs of the Arab
countries (1998-2001). The project supported existing biotechnological
efforts by transferring established techniques, and through training
of scientists. The project also directly supported activities related
to DH production, molecular marker applications, and genetic transformation.
The project has also helped to support regional activities for the
"Developing and harmonizing biosafety regulations for countries
in West Asia and North Africa". A number of regional workshops
and meetings are organized that help to promote the development
of national or regional biosafety frameworks [29].
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I, Erskine W, Baum M and E Pehu Inheritance and Linkage Analysis
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Michael
Baum
International Center for Agricultural Research in the Dry Areas
(ICARDA)
P.O. Box 5466
Aleppo, Syria
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