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Harris&02
8 August 2002
Science Chronicle
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Forum TRENDS in Genetics Vol.18 No.8 August 2002 427
Regions of high concentrations of 'ancient' apples Pre-history. Surmized distribution of Malus sieversii 'Silk roads'
TRENDS in Genetics
Fig. 2. Location of great trade routes (‘silk roads’, red), surmized distribution of Malus sieversii (green) and regions of 8-bp duplication that differs by a T residue,
high concentrations of present-day ‘ancient’ apples (yellow). Scale bar = 500 km. whereas duplication II is a perfect 18-bp
duplication. Duplications I and II were
Asian wild apple west, either in saddle the basis of the evidence available from the always present together, suggesting that
bags or horses’ guts. We now know that the living plant’ [1]. However, the molecular each has arisen only once during the
important technique of grafting (described systematics revolution potentially provides evolution of Malus spp. (Fig. 3).
as ‘instant domestication’ [12]), where the an excellent source of potential characters Duplication II was polymorphic in both
variety can be preserved forever, was for analyses of these type. the Central Asian wild apple and the
probably discovered in Mesopotamia at domesticated apple, suggesting that the
Mari, as early as 3800 years ago (S. Dalley, The origin of the domesticated apple and Central Asian wild apple could be the
pers. commun.). The description, on relations with other Malus spp. major maternal contributor, as proposed
cuneiform tablets, concerns vines Combinations of nuclear (nDNA) and by Watkins et al. [20].
(Vitis spp.), but the techniques are easily cytoplasmically [chloroplast (cpDNA) The nuclear ribosomal internal
transferable. From there, the fruits and and mitochondrion (mtDNA)] inherited transcribed spacer (ITS) showed
the necessary technology passed through molecular genetic markers provide 89 phylogenetically informative characters
the Persians and Greeks to the Romans, important clues about the origins of from the 617 bp sequenced. A strongly
who perfected orchard economies. The domesticated plants, for example, supported group comprised the Central
Romans brought the whole package Citrus spp. [16], beans [17] and potatoes Asian wild apple and the domesticated
to Western Europe and, for the last [18]. In Malus, the chloroplast genome apple, as well as M. asiatica, M. orientalis,
2000 years, the domesticated apple has provides data about evolutionary M. niedzwetzkyana and M. prunifolia (all
diversified and flourished worldwide. relationships of the maternal line, whilst from section Malus spp.), although there
Archaeological evidence for the collection biparentally inherited nDNA provides was little resolution within this group
of apples from the wild in Europe can independent data, which, combined with (Fig. 4). Together, data from the chloroplast
be found in Neolithic (11 200 years ago) cpDNA, could enable the origin of the and nuclear genomes support the view that
and Bronze Age (c. 4500 years ago) sites domesticated apple to be determined. the domesticated apple is most closely
throughout Europe [13,14], and for apple Hybridization and introgression are related to the series Malus spp. These data
cultivation as early as 1000 BC in Israel [1]. expected to have been important factors in also indicate that the Central Asian wild
In terms of apple domestication, series the development of domesticated apple apple could be most closely related to the
Malus is the most important group of cultivars. Therefore, for investigations that domesticated apple. Savolainen et al. were
species. However, the nomenclature of the aim to determine the earliest origins of the unable to determine the origin of the
species in series Malus is complex. With domesticated apple, it is necessary to use domesticated apple because of a lack of
few discrete characters to differentiate cultivars that are as ancient as possible. variation in the cpDNA-encoded atpB-rbcL
species, the difficulty of species matK, a cpDNA-encoded region spacer and the absence of the Central Asian
delimitation has hampered investigations ~1800-bp long, of which 1341 bp wild apple in their sample [21]. However,
into the origins of apples [15]; was sequenced, showed only additional phylogenetically useful DNA
morphological characters used to delimit 16 phylogenetically informative characters sequence information should be sought,
species in series Malus are continuous and across the genus Malus, and thus poor so that this hypothesis can be confirmed;
overlapping. Such problems perhaps resolution in the phylogenetic tree [19] additional sampling of Central Asian wild
contributed to Zohary and Hopf’s (Fig. 3). However, two duplications were apples and domesticated apples is needed
statement that ‘it is therefore futile to try to found 39 bp from the 3′ end of the matK to ensure that rare hybridization events
delimit the area of initial domestication on coding region. Duplication I is an imperfect with other Malus spp. that might have
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428 Forum TRENDS in Genetics Vol.18 No.8 August 2002
n
et al.] [26]. As with wild species, the
a ti o
tion
taxonomy of apple varieties is fraught with
pl i c
lica
du
up
problems, including environmental and
pd
-bp
developmental variation within varieties,
8-b
18
and limited numbers of morphological
Series Malus Wild apple and chemical characters to distinguish
Section Malus
Series Baccata Domesticated apple varieties [11]. In addition the triad of
Section Sorbomalus Malus asiatica decreasing budgets, but increasing
Section Eriolobus Malus micromalus collection size and running cost, traps a
Malus sylvestris collection manager whose goal is to have
Section Docyniopsis
Malus baccata a well-characterized but easily utilized
Section Chloromeles
Malus hupehensis collection, and forces choices to be made to
Weak(50–74%) support Malus sieboldii try and minimize genotypic redundancy.
Strong (75–100%) support Malus toringoides Thus, molecular genetic markers provide
Malus fusca a valuable aid to the identification of
Duplication present
Malus tschonoskii duplicates (possible cultivar synonyms),
Duplication polymorphic Malus prattii
correctly naming mis-identified plants
Duplication absent Malus yunnanensis
and enabling managers to make effective
Malus kansuensis
decisions about the reduction of collection
Malus doumeri
size without reducing genetic variation
Docynia delavayi
(i.e. creation of core collections) [27].
Malus orientalis
Two contrasting types of molecular
Malus coronaria
genetic marker can be used to characterize
Malus ioensis
apples. The first type is those that identify
Malus trilobata
few, high information content loci, such as
Malus florentina
microsatellites. The second are those that
Maloid outgroups
identify many, low information content loci,
(b) such as RAPD. Studies of RAPD variation
matK 3′ trnK
in Malus spp. have focused on the diversity
present in domesticated apples and
germplasm collections. Dunemann et al.
investigated RAPD variation at 52 putative
aaattctatttaaatattaaataattaagagataacaaaaaattaagagataacaaaaaattaat loci in a collection of 27 domesticated apple
8-bp duplication I 18-bp duplication II cultivars and were able to differentiate
TRENDS in Genetics
between cultivars [22]. Furthermore,
Fig. 3. Phylogeny of the chloroplast DNA-encoded gene matK in the genus Malus (a). A cartoon of matK is shown RAPD markers have also been used to
in (b) and the positions of the two duplications are indicated. Wild apple refers to the Central Asian wild apple, analyse the maternal and paternal
M. sieversii. Circles indicate the level of statistical support for particular groups. The distribution of the two matK
duplications is shown on the tree.
contributions to pedigrees [22,28,29]. In a
large study by Oraguzie et al., 43 RAPD
contributed to the early domestication of reproducibility, primer structure, markers were used to assess the variation
apples have not been overlooked. dominance, product competition, homology, in a worldwide collection of 50 old
The need for more variable DNA allelic variation, genome sampling and domesticated apple varieties, current
markers has led to analyses of Malus non-independence of loci, whilst similar breeding lines and a collection of 105 other
phylogeny using randomly amplified problems have been highlighted for the use apples, including wild species [30].
polymorphic DNA (RAPD) [22] and nuclear of SSRs in phylogenetic analyses [23–25]. Individual cultivars could be distinguished
microsatellites [single sequence repeats and ~95% of the RAPD variation occurred
(SSR)] [23]. Dunemann et al.’s results Variation within the domesticated apple within cultivars, breeding lines and wild
indicated that M. pumila and M. sylvestris Many thousands of named domestic apple species. Furthermore, Central Asian wild
(section Malus) were involved in the origin varieties (both dessert and cider) have apple accessions were scattered in a
of cultivated apples [23]. However, they been selected for hundreds of years in cluster analysis based on genetic distance.
suggested that M. sylvestris, M. florentina Europe, Asia and North America, and more However, RAPD markers have been
or M. dasyphylla could be the female parent recently in the Southern Hemisphere. criticized for the analysis of genetic
of M. domestica. By contrast, Hokanson Together with wild species, these are variation on both technical and theoretical
et al.’s SSR studies were not useful in maintained in national collections as grounds [24] and, given the problem of
determining the relationships among the genetic resources for breeding, particularly poor inter-laboratory result reproduction,
142 accessions from 23 species analysed as sources of resistance to apple scab arbitrary fragment length polymorphisms
[23]. However, it has been argued that [Venturia inaequalis (Cooke) Winter], could be a more effective way of producing
RAPD data are not appropriate for the powdery mildew [Podosphaera leucotricha genotypes based on many, low information
reconstruction of phylogeny because of (Ellis and Everh) Salmon] and fireblight content, loci [31].
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Forum TRENDS in Genetics Vol.18 No.8 August 2002 429
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430 Forum TRENDS in Genetics Vol.18 No.8 August 2002
the University of Tashkent for assistance in 11 Morgan, J. (1993) The Book of Apples, Ebony Press 26 Manganaris, A.G. et al. (1994) Isozyme locus Pgm-1
12 Zohary, D. and Spiegel-Roy, P. (1975) Beginnings is tightly linked to a gene (Vf) for scab resistance in
the field collecting in Uzbekistan and
of fruit growing in the Old World. Science apple. J. Am.Soc. Hort. Sci. 119, 1286–1288
Kirghistan; the staff of LES-IC, the 187, 319–327 27 Szewc-McFadden, A.K. et al. (1996) Utilisation of
Khirghiz Swiss Forestry Support 13 Hopf, M. (1973) Apfel (Malus communis L.); identified simple sequence repeats (SSRs) in
Programme and the Forestry Institute of Aprikose (Prunus armeniaca L.). In Reallexikon Malus x domestica (apple) for germplasm
der Germanischen Altertumskunde (Vol. 1) characterisation. HortScience. 31, 619
the Republic of Kirghistan, Jalal-Abad,
(Beck, H. et al. eds), pp. 363–372, Walter de Gruyter 28 Harada, T. et al. (1993) DNA-RAPDs detect
Kirghistan; N. Ajtkhozina and 14 Schweingruber, F.H. (1979) Wildapfel und genetic variation and paternity in.
N. Ajtkhozina of the Ministry of Sciences prähistorische Apfel. Archaeo-Physika 8, 283–294 Malus. Euphytica 65, 87–91
and the University of Almaty for assistance 15 Rohrer, J.R. et al. (1994) Floral morphology of 29 Landry, B.S. et al. (1994) Phylogeny analysis of 25
in field collecting in Kazakhstan. In Maloideae (Rosaceae) and its systematic apple rootstocks using RAPD markers and tactical
relevance. Am. J. Bot. 81, 574–581 gene tagging. Theor. Appl. Genet. 89, 847–852
particular, we thank R. Wise of the Dept of
16 Moore, G.A. (2001) Oranges and lemons: clues to 30 Oraguzie Nnadozie, C. et al. (2001) Genetic diversity
Plant Sciences, Oxford, UK for all the the taxonomy of Citrus from molecular markers. and relationships in Malus sp. germplasm collections
artwork. B.E.J. is currently a Leverhulme Trends Genet. 17, 536–540 as determined by randomly amplified polymorphic
Emeritus Research Fellow in the Dept of 17 Beccara Veläsquez, V.L. and Gepts, P. (1994) RFLP DNA. J. Am. Soc. Hort. Sci. 126, 318–328
diversity of common bean (Phaseolus vulgaris) in 31 Jones, C.J. et al. (1997) Reproducibility testing of
Plant Sciences, Oxford.
its centres of origin. Genome 37, 256–263 RAPD, AFLP and SSR markers in plants by a
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plants. Trudy Byuro. Prikl. Bot. 16, 139–245 22 Dunemann, F. et al. (1994) Genetic relationships in restriction fragment length polymorphisms in
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Resources of Temperate Fruit and Nuts variation in a collection of Malus (apple) species Stephen A. Harris
(Moore, J.N and Ballington, R., eds), pp. 1–62, and hybrids. Euphytica 118, 281–294 Barrie E. Juniper*
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Dept of Plant Sciences, University of Oxford,
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American Malus (Rosaceae): hybridisation and microsatellites: a phylogenetic perspective.
Sir William Dunn School of Pathology,
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horse lineages. Science 291, 474–477 Forstgenetik und Forstpflanzenzüchtung Oxford, UK OX1 3RE.
Book Review
differences in size, shape, physiology and future research. As is often the case with
Dog-gone good genetics behavior, the domestic dog is uniquely multi-authored compendiums, there is
suited among mammals for modern little continuity. The chapters are not
The Genetics of genetic analysis. Why then has canine coordinated to support a common context
the Dog genetics not had a more prominent role in or theme, leading to a lack of overall
edited by A. Ruvinsky this, the genomics era? There are several commentary on the ‘big picture’ of canine
and J. Sampson reasons, some of which become apparent genetics. The book also fails to create a
CAB International, while reading The Genetics of the Dog. sense of excitement and discovery around
2001. £85.00 hbk This book is a loosely organized collection a species that has so much to offer to
(X + 564 pages) of reports from leading canine geneticists studies of mammalian development,
ISBN 0851995209 that describe the latest research results behavior, evolution and health. Thus, this
and molecular tools. Unfortunately, this is book represents a missed opportunity –
Phenotypic variation is the stuff of all the book aspires to do. The Genetics of to be provocative, to chart a course for
geneticists’ dreams. With hundreds of the Dog does not address obstacles in the future work, and to excite readers with
pure breeds showing extraordinary field or put forth hypotheses that catalyze the enormous promise that dog genetics
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