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Fertility of CMS wheat is restored by two Rf loci located on a recombined acrocentric chromosome

Summary The high potential for an acrocentric chromosome originated from a complex reorganization of chromosomes 1HchS and 6HchS from Hordeum chilense in the development of hybrid wheat technology.


Introduction
Global demand and consumption of agricultural crops for food, animal feed, and fuel are increasing at a rapid rate. Current projections indicate that the world population could increase by 2.25 billion people from present numbers, reaching 9.15 billion by 2050. To feed this larger, increasingly affluent population, food production must increase by 70 percent, and annual cereal production will need to rise from the present 2.8 tonnes ha -1 to 3.8 by 2050 (Alexandratos and Bruinsma, 2012). Wheat, as one of the most consumed cereals, together with rice and maize, is confronting a new challenge. Furthermore, climate change threatens the world's wheat crop production. This means that productivity needs to be improved, and new varieties adapted to the changing situation must be obtained to produce the additional 200 million tonnes per year already estimated to be needed by 2017 (Edgerton, 2009).
Heterosis, associated with the superiority of the first filial generation over the parental generation, is a powerful tool for improving yield and quality in many crops. The main advantages of hybrid versus line varieties are increased trait values owing to the exploitation of heterosis (Shull, 1948), greater yield stability especially in marginal environments (Hallauer et al., 2010;Mühleisen et al., 2014), and the ease of stacking dominant major genes (Edwards, 2001). Hybrid technology has been successfully exploited in several crops such as rice, maize, sunflower, sorghum, sugar beet, and rye (Hallauer, 1999). However, despite great efforts invested in the development of commercially viable hybrid wheat technology, to date, less than 1% of the total world wheat area is planted with hybrids (Longin et al., 2012). The reasons for this are diverse and include: the autogamous nature of wheat, its hexaploid condition, and the well-established use of line varieties. Ultimately, the real issue is the lack of an optimum system for hybrid production. In 2008, a new cytoplasmic male sterility (CMS) source in bread wheat (Triticum aestivum), designated msH1, was described (Martín et al., 2008a). This system uses the cytoplasm of Hordeum chilense Roem. et Schult. accession H1 (2n=2x=14, H ch H ch ), a diploid wild barley native to Chile and Argentina, which possesses some useful traits for wheat breeding such as drought and salt tolerance, resistance to several pests and diseases (Martín et al., 1996), high seed carotenoid content (Atienza et al., 2004(Atienza et al., , 2007, and high crossability with other members of the Triticeae tribe: Aegilops, Agropyrum, Dasypyrum, Secale, Triticum, and ×Triticosecale (Bothmer and Jacobsen, 1986;Martín et al., 1998). The msH1 CMS source in bread wheat is stable under varying environmental conditions, and neither grain shrivelling nor germination disorders have been observed. Unlike many other alloplasmic genotypes of wheat that exhibit developmental or floral abnormalities, the msH1 system shows only slightly reduced height and 3-4 days delay in heading (Martín et al., 2008a). Fertility restoration of the CMS phenotype was associated with the addition of the short arm of chromosome 6H ch of H. chilense (Martín et al., 2008a). When the alloplasmic ditelosomic addition line of 6H ch S was obtained, it was fully fertile; however, a single dose of 6H ch S was not sufficient for fertility restoration. Therefore, different wheat varieties and different chromosome combinations were explored in the search for new restorer genes. In 2010, whilst testing the msH1 system in different wheat backgrounds, a highly fertile line with 42 wheat chromosomes plus an extra acrocentric chromosome was obtained (Martín et al., 2010). The novel chromosome, named H ch ac, was able to restore fertility even in monosomic condition, which made it a good candidate for use in a hybrid production system. Data obtained from FISH (fluorescence in situ hybridization) and EST (expressed sequence tag) markers suggested that the long arm of the H ch ac chromosome was the short arm of chromosome 1H ch from H. chilense. The hypothesis was that the novel chromosome originated from chromosome 1H ch after a deletion of the distal part of the long arm of 1H ch (1H ch L). As neither the 1H ch S arm, nor the whole chromosome 1H ch restored pollen fertility of the alloplasmic wheat, it was hypothesized that the restorer gene on the acrocentric chromosome was located on the retained segment from chromosome 1H ch L, whereas some pollen fertility inhibitor was present on the deleted 1H ch L distal segment. However, the door was open to a more complicated origin of the acrocentric chromosome.
In the present work we continue the previous study to clarify the nature of the H. chilense chromosomes involved in the formation of H ch ac, as well as its role in the restoration of pollen fertility in the msH1 system. As it was shown that the whole H ch ac was of H. chilense origin, the use of GISH (genomic in situ hybridization) was not suitable. Instead, DArT (diversity arrays technology) molecular markers were used to clarify the situation, and found out that indeed, the extra acrocentric chromosome was produced by a more complicated process than that originally described. We demonstrate that H ch ac is a zebra-like chromosome (Jiang and Gill, 1993;Zhang et al., 2008) originating from chromosomes 6H ch S and 1H ch S. We compared restoration capability of the addition of 6H ch S or 1H ch S chromosome arms in the alloplasmic wheat, with that of the 1HS ch +6H ch S addition, and found that stable and high restoration of pollen fertility is obtained by the combination 1H ch S+6H ch S. Therefore we propose the presence of two restorers of fertility genes (Rf 6H ch S and Rf 1H ch S ) in the H ch ac chromosome.

Plant material
The genetic stocks used in this work are detailed in Table 1. T. aestivum cv. Chinese Spring (CS)-H. chilense addition lines (T21A1H 1 S, T21A1H 1 -1H1S, and T21A6H 1 S) were kindly provided by Steve Reader, JIC, Norwich, UK. Lines T218 and T593 were described in Martín et al. (2008a). Lines T236, T526, and T528 were developed by Martín et al. (2010). Lines T700 and T749 were obtained in this work. CS-H. chilense addition lines were used to assign markers to specific chromosomes in the DArT array.

Development of different lines
Lines T700 and T749 were obtained by recurrent back-crossing of T528 to CS. Three backcrosses were sufficient to obtain the CS background in the absence of the 1RS·1BL translocation present in T528. Plants with a single acrocentric chromosome H ch ac and with two acrocentric chromosomes were recovered from these crosses and named T700 (42+ac´) and T749 (42+ac´´), respectively. These plants were male fertile.

Cytological observations
For somatic chromosome counting, root tips of 1-cm length were collected from germinating seeds and pre-treated for 4 h in an aqueous colchicine solution (0.05%) at 25 °C. They were fixed in freshly prepared 3:1 of absolute ethanol:glacial acetic acid (v/v) and stained by the conventional Feulgen technique.
For meiotic chromosome observations, florets were collected and fixed in 3:1 of absolute alcohol:glacial acetic acid (v/v). The material was transferred to fresh fixative after 1-2 h and stored at 4 °C. Anthers were stained with 0.1% acetocarmine.
Fluorescence in situ hybridization (FISH) Root tips and anthers were fixed as described in "Cytological observations". Preparations were made as described by Prieto et al. (2001).

Molecular analysis
Two replicates of T236, T218, T528, and T700 were analysed. CS-H. chilense addition lines were used to assign markers to specific chromosomes. CS, T. aestivum cv. T26, and H. chilense accession H1 were also included in the analysis. DNA was extracted from young leaf tissue from a single plant of each genotype using the protocol recommended by Triticarte Pty. Ltd., ACT, Australia (http://www.triticarte. com.au). The DNA samples were sent to Triticarte Pty. Ltd. (www. diversityarrays.com) and hybridized to the same resulting composite array which was used to fingerprint tritordeum and wheat-H. chilense chromosome addition lines (Castillo et al., 2013). The array consisted mostly of previously developed H. chilense and wheat clones, and was completed with markers from barley, rye, and triticale. The resulting composite array was used to genotype alloplasmic and restored lines included in this study using the standard DArT protocol (Kilian et al., 2012). Also wheat-H. chilense addition lines were included which enable the assignment of the markers to H. chilense chromosomes.  Raupp et al. (1995) for the genetic stocks of wheat and its relatives The consensus chloroplast simple sequence repeat ccSSR-4 developed by Chung and Staub (2003) was used to verify the presence of the H. chilense cytoplasm in the alloplasmic lines (Martín et al., 2008b). PCR was carried out as described by Chung and Staub (2003).
A set of 23 EST markers coded Bawu and K0 (Hagras et al., 2005;Nasuda et al., 2005) that had previously been assigned to chromosomes 1H ch and 6H ch were used to identify the origin of the extra acrocentric chromosome. In addition, two SSRs (Bmac 316 and EBmac 674) (Ramsay et al., 2000), one STS MWG620 (Sayed-Tabatabaei et al., 1998), the TaFAd gene (Xu et al., 2008) and the AK362725 gene (Matsumoto et al., 2011) were also used for the identification of chromosomes.
All amplification products were resolved by agarose gel electrophoresis and visualized with ethidium bromide.

Transmission of the acrocentric chromosome and fertility scoring
The male and female transmission rates of the acrocentric chromosome were determined cytologically by somatic chromosome counting. To distinguish between male and female transmission, plants carrying the acrocentric chromosome (T700) were crossed with CS both as a male and a female parent, and the transmission rate of the acrocentric chromosome was analysed in the progeny (Supplementary Fig. S1). Selfed progeny of T700 were also investigated.
To compare fertility and morphology of the different lines involving 6H ch S, 1H ch S, and the acrocentric chromosome under field conditions, the appropriate crosses were carried out to obtain different combinations of these chromosomes in the alloplasmic wheat (T21) background with H. chilense cytoplasm. Alloplasmic line T218 was pollinated with T21A1H 1 S to obtain the monosomic addition of 1H ch S in the alloplasmic wheat background. Line T593 was pollinated with T21 to obtain the monosomic addition of 6H ch S, and with T21A1H 1 S to obtain the monosomic addition of 1H ch S and 6H ch S. Fertility was scored by counting the number of grains per lateral flower in 20 flowers located in the middle of every spike. Only the first five spikes in every plant were scored.

Results
Origin and molecular structure of the acrocentric chromosome DArT makers. In this study, alloplasmic and restored lines were hybridized with an array composed of a total of 4941 DArT clones, most of them derived from H. chilense and hexaploid wheat probes. The array was complemented with markers from barley, rye, and triticale. Wheat-H. chilense addition lines were also included, allowing the assignment of 1280 H. chilense markers to specific chromosomes.
Restored lines T528 (42+ac″) and T700 (42+ac′) gave positive signals in the array with markers assigned to chromosomes 1H ch S and 6H ch S exclusively, which indicated that the acrocentric chromosome H ch ac was formed by only these two chromosome arms of H. chilense. From the 1280 DArT markers specific to H. chilense chromosomes, 105 and 128 were assigned to the short arms of chromosome 1H ch and 6H ch , respectively. All the markers assigned to 1H ch S gave a positive signal in the lines carrying the acrocentric chromosome, whereas only 59 markers (46%) assigned to 6H ch S gave a positive signal. DArT markers from 1H ch S and 6H ch S that gave positive signals in the acrocentric chromosome are shown in Supplementary Material (Supplementary Table S1).
Four hundred and fifty DArT markers used in this work had already been genetically mapped in a previous H. chilense mapping project carried out by our group (Rodríguez-Suarez et al., 2012). Fifty-five of them were mapped to a specific H. chilense 1H ch S or 6H ch S chromosome arm. Two non-DArT markers (Bmac 316 and TAFad) were also mapped (Rodríguez-Suárez and Atienza, 2012). All the markers mapped to chromosome 1H ch S were present in the acrocentric chromosome. However, several centromeric markers from 6H ch S were absent in the acrocentric chromosome, which suggested that not the whole 6H ch S arm was present in the acrocentric chromosome (Fig. 1), but only the distal part of it.
PCR-based marker. After DArT marker analysis, a set of chromosome-specific PCR-based markers were used to verify the presence of 1H ch S and 6H ch S chromosomes in the H ch ac chromosome. Of the 28 markers tested, 12 produced an amplification fragment corresponding to H. chilense. Five of them were assigned to 1H ch S and seven to chromosome 6H ch S. The presence or absence of these markers in the acrocentric chromosome is shown in Table 2.
All of the markers from 1H ch S amplified a product in the acrocentric chromosome. Of the seven markers located on 6H ch S, four amplified in H ch ac. As observed in Fig. 2, the presence of chromosomes 1H ch S and 6H ch S was confirmed in the acrocentric chromosome.  Characterization of the acrocentric chromosome by FISH and meiotic pairing analysis FISH. To show the unique barley origin of the acrocentric chromosome, T749 line (42+ac″) was analysed by GISH using H. chilense H1 genomic DNA as probe, labelled with biotin-11-dUTP and detected with streptavidin-Cy3 (magenta). As shown in Fig. 3A, the entire acrocentric chromosome is magenta in colour, indicating its unique H. chilense origin. FISH was also carried out using a TRS and the repetitive pAs1 probe, both labelled with digoxigenin-16-dUTP and detected with FITC (green). The TRS probe was used to show that telomeres were present at both ends of the H ch ac chromosome arms in spite of the reorganization in this chromosome (Fig. 3A). The pAs1 probe (Fig. 3B) was used because it shows a characteristic hybridization pattern in H. chilense that can help the identification of the different chromosome arms. Fig. 3B shows that the H ch ac chromosome has hybridization sites in both arms. There is a single hybridization signal at the terminal position of the long arm of H ch ac, and two closely spaced signals at the terminal and subterminal positions of the short arm of H ch ac. Based on the FISH patterns obtained using the TRS and the pAs1 as probes, together with the patterns using the pTa71 and pSc119.2 as probes described in Martín et al. (2010), a graphical representation of the acrocentric chromosome H ch ac is shown in Fig. 4. The locations of the different probes agreed with the results obtained with the DArT and the PCR-based markers, confirming the presence of both 1H ch S and 6H ch S in the acrocentric chromosome. Meiotic pairing analysis. If the acrocentric chromosome is formed by most of 1H ch S and part of 6H ch S, we should be able to observe some pairing between the acrocentric chromosome and both chromosomes arms. Moreover, the pairing configuration during pachytene, where chromosomes are still quite decondensed, could shed some light on the localization of both 1H ch S and 6H ch S chromosome segments in the acrocentric chromosome.
We first analysed meiotic pairing of the acrocentric chromosome with the whole chromosome 1H ch and the short arm of chromosome 1H ch . We used T749 (42+ac″) as female parent and pollinated with T21A1H 1 -1H 1 S (43+t′). In the progeny, two types of combinations were recovered: the double monosomic addition of H ch ac and 1H ch and the double monosomic addition of H ch ac and 1H ch S. Fig. 5A shows a pachytene configuration of the first combination, the double monosomic H ch ac-1H ch . Telomeres were labelled in green and H. chilense DNA in red. It was observed that a large length of the acrocentric chromosome was perfectly paired with 1H ch from one of its ends. Because of the DArT and PCR-based markers, we knew that H ch ac contained most, if not the whole, 1H ch S chromosome, which together with the FISH results indicated that the terminal region of the acrocentric chromosome was also the terminal region of chromosome 1H ch S. Fig. 5B shows an anaphase I of the second combination, the double monosomic addition of H ch ac and 1H ch S. During metaphase I it was very difficult to assess pairing because all the chromosomes localize at the metaphase plate; however, in anaphase I, when chromosomes were pulled apart, it was occasionally observed that the short arm of the acrocentric chromosome paired with the 1H ch S. This supported the hypothesis of 1H ch S being part of the short arm of the H ch ac.
Next, to analyse the meiotic pairing of the acrocentric chromosome with chromosome 6H ch S, line T749 (42+ac″) was pollinated with T593 (42+t″) to obtain in the progeny a line double monosomic for H ch ac and 6H ch S (42′+ac′+t′). This line was also analysed at the pachytene stage (Fig. 6). It was observed that the H ch ac chromosome paired with the 6H ch S along a great part of one of their distal ends. The pericentromeric area of the 6H ch S, identified by the lack of telomere sequences, did not pair with the H ch ac, suggesting that the centromere and pericentromeric sequences of the H ch ac probably came from chromosome 1H ch . However, although there was always pairing between H ch ac and 6H ch S, the pairing configurations were not always the same. Different pairing configurations are shown in Supplementary Fig. S2.

Transmission of the acrocentric chromosome to the progeny
In the paper of Martín et al. (2010), the mono-and disomic addition lines of the acrocentric chromosome were described and characterized; however, no specific data were given on the transmission of this chromosome. In this work, the male and female transmission of the acrocentric chromosome was determined cytologically by somatic chromosome counting. The disomic addition line of H ch ac in both T26 and CS background behaved as a perfectly normal line, with all the progeny being identified as disomic additions of H ch ac (data not shown). Consistent with this result, when the alloplasmic lines T218 and T236 were pollinated with T749 and T528 respectively, all the progeny inherited one acrocentric chromosome and were fertile (data not shown). As described in the materials and methods, to distinguish between male and female transmission of H ch ac, plants carrying one acrocentric chromosome (T700) were selfed, and also crossed with CS both as male and female parents. The progeny was analysed and data is shown in Table 3. It was observed that the transmission of the acrocentric chromosome was better through the female (18.9%) than through the male gametophyte (6.6%), which is normally observed with aneuploid lines.

Fertility restoration scoring
Results obtained in this work demostrate that the acrocentric chromosome is formed by segments of the 1H ch S and 6H ch S chromosomes of H. chilense. Hence, it would be interesting  to assess the fertility restoration capacity of these two chromosomes. We evaluated the fertility restoration in alloplasmic lines with the addition of chromosomes 1H ch S, 6H ch S, and the addition of both chromosome arms. Fig. 7 shows the percentage of restoration in all these cases under the same environmental conditions. The fertility restoration capacity of 1H ch S and 6H ch S when present in monosomic condition was very low; 3.4 and 5.2%, respectively. However, when both chromosome arms were present (still both in monosomic condition), the fertility restoration capacity increased greatly to 67.4%. These results indicated that some restoration capacity must be present in both 1H ch S and 6H ch S, but that it was only when the two chromosomes were together in the same plant that the fertility restoration capacity was greatly increased. We studied the fertility restoration of alloplasmic lines with the addition of the acrocentric chromosome ( Fig. 7 and Supplementary Table S2). In this case, the fertility capacity restoration was even higher than when both 1H ch S and 6H ch S were added, reaching 77.6%.

Discussion
Origin of the acrocentric chromosome The acrocentric chromosome described by Martín et al. (2010) was suggested to be chromosome 1H ch after a deletion of the distal part of the long arm. However, this was only a hypothesis, as at the time of that study, limited genomic information was available for the wild barley H. chilense. Comparative  In situ hybridization to a pachytene cell from the line double monosomic for H ch ac and 6H ch S. Double FISH signals were observed using H. chilense genomic DNA detected with streptavidin-Cy3 (magenta) and a telomere repeat sequence probe detected with FITC (green). Blue DAPI staining shows wheat chromosomes. The acrocentric chromosome H ch ac and the 6H ch S chromosome pair along one of their distal parts. The centromeric part of the 6H ch S is indicated by an arrow.  genomics allowed the transfer of wheat and barley molecular markers to H. chilense (Hagras et al., 2005;Nasuda et al., 2005), but their density proved to be insufficient for a more detailed study. In 2012, the development of H. chilense-derived DArT markers and their use in genetic and physical mapping  allowed us to study the acrocentric chromosome H ch ac in greater details. As shown in the results section, the H ch ac chromosome gave positive signals with markers assigned to chromosomes 1H ch S and 6H ch S exclusively, which indicates, unequivocally, that H ch ac is formed by these two chromosome arms of H. chilense. All the DArT markers assigned to the short arm of chromosome 1H ch gave a positive signal in the lines carrying the acrocentric chromosome, indicating that most, if not all, of 1H ch S is probably part of the H ch ac chromosome. Only 46% of the DArT markers assigned to chromosome 6H ch S gave positive signals in the acrocentric chromosome, which shows that only part of 6H ch S is present in H ch ac. No positive signal was detected for 1H ch L on the acrocentric chromosome. Therefore, the original hypothesis about the presence of a restorer gene on 1H ch L seemed to be incorrect. Some of the DArT markers located in H ch ac had already been mapped to the different H. chilense chromosomes by , together with two non-DArT markers, Bmac 316 and TAFad (Rodríguez-Suárez and Atienza, 2012). This allowed us to determine that the centromeric part of 6H ch S is not present in the acrocentric chromosome, but only the more distal part (Fig. 1). However, the DArT marker analysis does not define the order of the different chromosome segments in the H ch ac chromosome; we only know that most of 1H ch S and part of 6H ch S are present, but not the order on the H ch ac chromosome. To shed some light on this matter, we carried out FISH and meiotic pairing analysis. It was previously shown (Martín et al., 2010) that H ch ac did not possess sequences similar to wheat rDNA, so the nucleolar organizer region (NOR) located on 6H ch S is not present in H ch ac. It was also shown that the pSc119.2 probe hybridized to the long arm of the H ch ac chromosome. This data, together with the DArT analysis carried out in this work, indicates that the end of the long arm of H ch ac corresponds to the distal part of 1H ch S, and that only the distal part of 6H ch S beyond the NOR is present in the H ch ac chromosome. As expected, FISH using a telomere repeat sequence showed the presence of telomeres at both ends of H ch ac. The telomere sequences from the long arm of H ch ac must correspond to the ones from 1H ch S, but the origin of the telomere sequences present in the short arm of H ch ac was not clear. DArT marker analysis showed that the distal part of 6H ch S is also part of the acrocentric chromosome, so it seems reasonable to postulate that the telomere sequences present at the end of the short arm of the H ch ac chromosome correspond to the telomeres of 6H ch S. However, we should also consider the possibility of telomere sequence regeneration de novo. Telomeres are necessary for the stability of chromosomes and it is known that telomeres can also form de novo at the sites of chromosome breaks in a process termed telomere healing or de novo telomere addition (Kramer and Haber, 1993;Friebe et al., 2001;Pennaneach et al., 2006;Zhang et al., 2010). Cytological analyses showed that the acrocentric chromosome pairs with both 1H ch S and 6H ch S chromosomes, which suggests that the distal parts of the acrocentric chromosomes belong to chromosomes 1H ch S and 6H ch S. Because both the DArT marker and cytological analyses indicate that only the distal part of chromosome 6H ch S is present in the acrocentric chromosome, the simplest explanation for the origin of the acrocentric chromosome would be a fusion between the distal part of 6H ch S and the short arm of 1H ch , carrying the centromere from the latter. However, the collective cytological data obtained in this work suggests that the origin of H ch ac is probably more complex; therefore we propose an alternative hypothesis. Fig. 5A shows that 1H ch and H ch ac pair along one of their ends and that the unpaired segment of H ch ac is smaller than the paired one. The pairing of chromosome 6H ch S with H ch ac (Fig. 6) seems to be from the ends as well, leaving the proximal part of 6H ch S unpaired. However, whereas the pairing between 1H ch S and H ch ac was evident and well defined, the pairing of chromosome 6H ch S with H ch ac was not always so clear ( Supplementary  Fig. S2). Additionally, anaphase I (Fig. 5B) shows the remaining pairing between the telocentric 1H ch S and the short arm of H ch ac. This suggests that part of 1H ch S is located in the short arm of H ch ac. Based on all the results, we propose that H ch ac is a `zebra-like´ chromosome (Jiang and Gill, 1993) formed by alternate fragments of chromosomes 6H ch S and 1H ch S. The short arm of H ch ac would be formed by two chromatin segments: the pericentromeric region would be derived from the pericentromeric region of chromosome 1H ch S including the centromeric sequences; and the telomeric segment was derived from the telomeric region of 6H ch S. The long arm of H ch ac would be formed by two chromatin segments as well: the pericentromeric region would include a 6H ch S segment, and the rest of the arm would derive from chromosome 1H ch S including the telomere. We hypothesize the genesis of H ch ac in three steps: first, a centric fusion of 1H ch S and 6H ch S; second, the deletion of the middle region of 6H ch S including the NOR region; and third, a pericentric inversion.

Restoration of male fertility
The observation of modified additional chromosomes that spontaneously arise when working on interspecific hybridization, and that are associated with CMS and fertility restoration in wheat is not exceptional (Jiang and Gill, 1993;Francki and Langridge, 1994;Zhang et al., 2008). The acrocentric chromosome described in this work is reminiscent of the case of the zebra chromosome first described by Jiang and Gill (1993). The zebra chromosome was isolated from the derivatives of an Elymus trachycaulus × T. aestivum hybrid and was named `zebra´ because of its striped GISH pattern as a result of multiple translocations involving two non-homologous chromosomes (from E. tranchycaulus and T. aestivum). The zebra chromosome, the same as the H ch ac, is able to restore male fertility in alloplasmic wheat . The mechanism of origin of these modified chromosomes could be explained by non-homologous recombination or by multiple translocation events. Zhang et al. (2008) suggested that the zebra chromosome originated from non-homologous recombination based mainly on the linear order of the markers of the Elymus and wheat segments in the zebra chromosome. In the case of the H ch ac chromosome, we suggest that the origin is multiple translocation events (as explained above). However, the exact composition of this chromosome can only be known until the marker order becomes available. Aneuploid changes in chromosome number and the origin of structurally rearranged chromosomes are frequently associated with interspecific hybridization (summarized by Gill, 1991). Whatever the origin of these zebra chromosomes, it seems obvious that these kinds of modified chromosomes are more common than we had originally thought; but it is only in cases where they show some reproductive advantages, such as H ch ac restoring male fertility, that they are retained and consequently studied. The significance of this phenomenon should be considered in relation to chromosome evolution and step changes in chromosome number, particularly in polyploid species like wheat, where buffering of the genome owing to polyploidy allows the study of chromosome structure and behaviour over many generations (Jiang and Gill, 1993). An attractive hypothesis is to consider alloplasmic male sterility as a first step leading to unisexual plants, which is one of the mechanisms in the determination of functionally dioecious species. The cellular and molecular mechanisms leading to unisexuality remains poorly understood. Recently, temporal and spatial changes in the pattern of programmed cell death during gametogenesis have been indicated as responsible for male sterility of female flowers (Flores-Renteria et al., 2013). In the msH1 system, flowers initiate as hermaphrodites. As their development progresses, the male reproductive system aborts or collapses (just after microspore formation), whereas the female reproductive system is perfectly functional. In other alloplasmic systems, effects on the male reproductive system are even more marked. An example is pistilloidy (Kihara, 1951;Fukasawa, 1953;Murai et al., 2002), the homeotic transformation of stamens into pistil-like structures. Pistilloidy could be the initiation of a plant with only female flowers, whereas the presence of a fertility restorer could lead to the appearance of the male ones.
Independently of the origin and composition of the acrocentric chromosome, which is very interesting from the point of view of chromosome evolution, the high relevance of this work relies on the ability of this chromosome to restore male fertility. The importance of the group 6 homoeologous chromosomes in the restoration of male fertility has been revealed for different Triticeae species. In wheat, restorer genes for the T. timopheevii cytoplasm were located on homoeologous group 6 chromosomes: Rf4 on 6B, Rf5 on 6D, and Rf6 on 6A and 6B (McIntosh et al., 2003). The Rfc3 restorer of rye is localized in the 40% terminal region of chromosome 6R (Curtis and Lukaszewski, 1993). In barley, the Rfm1 restorer locates on the distal part of chromosome 6HS (Matsui et al., 2001); and recently, in winter triticale with T. timopheevii cytoplasm, the most effective restorer genes were also found on the chromosomes belonging to the homoeologous group 6 (Stojalowski et al., 2013). On the other hand, several restorer genes have also been located on homoeologous group 1 chromosomes in wheat (Robertson and Curtis, 1967;Kuĉera, 1982;Maan et al., 1984;Jiang and Gill, 1994;Ma and Sorrels, 1995;Kojima et al., 1997;Ahmed et al., 2001;Liu et al., 2002;Zhang et al., 2008). In Martín et al. (2010), it was mentioned that the addition of 1H ch S to wheat did not restore pollen fertility in the alloplasmic wheat; however, we observed that both monosomic addition of chromosome 6H ch S or 1H ch S occasionally restores fertility to CMS wheat ( Fig. 7 and Supplementary Table S2). The fact that fertility restoration of 1H ch S is so low and unpredictable (3.4%), suggests that its restoration ability may be highly affected by environmental conditions, which is very frequently observed when working with CMS (Maan et al., 1984;Wilson, 1984;Ma and Sorrells, 1995;Abdel-Ghani et al., 2012). However, when both chromosome arms 6H ch S and 1H ch S are present in monosomic conditions, the fertility restoration capacity increases to 67.4% (Fig. 7 and Supplementary Table S2). Thus, some restoration capacity is present in both the 1H ch S and 6H ch S arms, but it is only when the two chromosomes are both present that fertility restoration is greatly increased. The restorer gene located in 6H ch S is probably the Rf 6H ch S as previously described by Martín et al. (2008a), whereas a new restorer gene named Rf 1H ch S is present on 1H ch S. Fertility restoration capacity of the H ch ac chromosome is higher than those when both 1H ch S and 6H ch S are present (77.6% vs. 67.4%). This supports the presence of both Rf 6H ch S and Rf 1H ch S in the acrocentric chromosome, because the increased fertility can be explained by the presence of both restorers in single gametes. During meiosis, two consecutive nuclear divisions (meiosis I and meiosis II) occur without chromosomal replication in between, leading to the production of four haploid gametes, each containing one of each pair of homologous chromosomes. Therefore the probability of the two Rf genes going into the same gamete is much higher if they are present in the same chromosome (H ch ac), rather than in two different chromosomes (6H ch S and 1H ch S).
It is unknown whether both restorer genes, Rf 6H ch S and Rf 1H ch S , are located in the same chromosome arm of H ch ac. To shed some light on this question, we screened over 1000 plants trying to recover the short and the long arm of chromosome H ch ac by centromeric misdivision at metaphase I. We were not successful, probably because as suggested above, the Rf 6H ch S is located on the short arm of H ch ac, whereas the Rf 1H ch S is on the long arm, and neither of them gives enough advantage to be transmitted alone by the pollen. When the acrocentric chromosome is present in monosomic condition, its transmission to the progeny is better through the female gametophyte than through the male one, which is due to certation; and when H ch ac is present in homozygosity, its transmission is 100% to the progeny. Consequently, the restoration capacity of the disomic addition of the acrocentric chromosome line is complete. However, it is not possible to use this system for hybrid seed production if restoration relies on aneuploidy, as the performance of aneuploids will never reach the high and stable performance of an euploid line. In future development of the system, the goal will be to introgress the Rf genes present in the H ch ac chromosome into euploid wheat.

Supplementary data
Supplementary data are available at JXB online Table S1. DArT markers assigned to Hordeum chilense 1H ch S and 6H ch S chromosomes. Table S2. Number of grains per lateral flower in 20 flowers (located in the middle of every spike) and percentage of fertility restoration. Figure S1. Transmission rate of the acrocentric chromosome when present in monosomic condition. Figure S2. In situ hybridization to pachytene cells from the line double monosomic for H ch ac and 6H ch S.