The dense and erect panicle (EP) genotype conferred by DEP1 has been widely used in the breeding of high-yield Chinese japonica rice varieties.  However, the breeding value of the EP genotype has rarely been determined at the plant population level.  Therefore, the effects of the interaction of EP genotype and the environment at different locations and times on rice yield and its various components were investigated in this study.  Two sets of near-isogenic lines (NILs) of EP and non-EP (NEP) genotypes with Liaojing 5 (LG5) and Akitakomachi (AKI) backgrounds were grown in the field in 2016 and 2017 in Shenyang, China, and Kyoto, Japan.  In 2018, these sets were grown only in Kyoto, Japan.  The average yields of the EP and NEP genotypes were 6.67 and 6.13 t ha⁻¹ for the AKI background, and 6.66 and 6.58 t ha⁻¹ for the LG5 background, respectively.  The EP genotype positively affected panicle number (PN) and grain number per square meter (GNPM), mostly resulting in a positive effect on harvest index (HI).  In contrast, the EP genotype exerted a negative effect on thousand-grain weight (KGW).  The ratio of the performance of the EP genotype relative to the NEP genotype in terms of yield and total biomass correlated positively with mean daily solar radiation during a 40-day period around heading.  These results indicate that the effectiveness of the EP genotype depends on the availability of solar radiation, and the effect of this genotype is consistently positive for sink formation, conditional in terms of source capacity, and positive in a high-radiation environment.

Plant-pathogenic Xanthomonas infects a wide variety of host plants and causes many devastating diseases on crops.  Transcription activator-like effectors (TALEs) are delivered by a type III secretion system (T3SS) of Xanthomonas into plant nuclei to directly bind specific DNA sequences (TAL effector-binding elements, EBEs) on either strand of host target genes with an unique modular DNA-binding domain and to bidirectionally drive host gene transcription.  The target genes in plants consist of host susceptibility (S) genes promoting disease (ETS) and resistance (R) genes triggering defense (ETI).  Here we generally summarized the discovery of TALEs in Xanthomonas species, their functions in bacterial pathogenicity in plants and their target genes in different host plants, and then focused on the newly revealed modes of protein action in triggering or suppressing plant defense.

   The erect panicle (Ep) type is an important characteristic for japonica super rice in Northeast China and plays a significant role in enhancing yield. The Ep type is considered to be a genetic ideotype resource to the japonica super rice group by virtue of its agronomic advantages such as grain number per panicle and biomass. This study addresses the effects of nitrogen and planting density conditions on yielding performance regarding panicle type (PT) using the recombinant inbred line (RIL) population derived from the cross between an Ep variety Liaogeng 5 and non-Ep variety Wanlun 422. The genetics underlying the Ep type proved to be robust not only for panicle-type optimization but also plant height, panicle length, flag leaf length and seed density. We also found that regardless of nitrogen and density, correlation between harvest index (HI) and plant height was not significant in Ep type whatever the nitrogen and density. The application of Ep type provides a potential strategy for yield improvement by increasing biomass through HI maintainable in rice.

japonica rice is mainly distributed in Northeast China and accounts for 44.6% of the total cultivated area of japonica rice in China.  The comprehensive using of inter-subspecies heterosis is the main breeding mode of super japonica rice varieties in this region.  Improving rice quality at relative high yielding level is the current research focus.  Performing crosses between indica and japonica lines allows for the recombination of regulatory genes and genetic backgrounds, leading to complicated genetic rice quality characteristics, which can be used to explore patterns of quality improvement.  In the present study, we utilize recombinant inbred lines (RILs) derived from indica-japonica hybridization to analyze the effect factors of rice quality derived from genetic factors, which contain both regulatory genes concerning rice quality and genetic backgrounds’ random introduction frequency coming from indica (Di value), and the improvement strategy was further discussed.  The regulatory genes involved in amylase content (Wx) and nitrogen utilization efficiency (NRT1.1B) were the major factors affecting the amylose content (AC) and protein content (PC) in RILs, respectively.  Both the Di value and the major grain width gene (GS5) had regulatory effects on milled rice width (MRW) in RILs, and their interaction explained the major variance of MRW in the RILs.  With the mediation of MRW and chalkiness degree (C), Di value had a further impact on head rice rate (HR), which was relatively poor when the Di value was over 40%.  In Northeast China, the Di value should be lowered by backcrossing or multiple crosses during the breeding of indica-japonica hybridization to maintain the whole better HR and further to emphasize the use of favorable genes in individual selection.

Super rice breeding in China has been very successful over the past 3 decades, and the Chinese government has made great efforts to support breeding and cultivation of both conventional and hybrid super rice.  In this review, we focus on the progress in and potential of super rice breeding.  After the establishment of the breeding theory and strategy of “generating an ideotype with strong heterosis through inter-subspecies hybridization, by using gene pyramiding to combine elite traits through composite-crossing to breed super rice varieties with both ideotype and strong hybrid vigor”, a series of major breakthroughs have been achieved in both conventional and super hybrid rice breeding.  A number of new genetic materials with ideotype have been created successfully, and the Ministry of Agriculture of China has approved 156 novel super rice varieties and combinations for commercialization.  During the Developing the Super Rice Varieties Program, great attention has also been paid to the integration and demonstration of the rice production technology.  Collaboration between industry and university researchers has led to technological innovations and initiation of a demonstration system for super hybrid rice.  With widespread cultivation of super rice with higher quality and yield, as well as resistance or tolerance to abiotic or biotic stresses, the yield of rice production per unit has reached a new level.  In addition to increased quality and yield, hybrid rice breeding has also led to improvements in many other agronomic traits, such as resistance to pests and diseases, resistance to lodging, and optimized light distribution in population.  Achievements in super rice breeding and innovation in rice production have made major contributions to the progress in rice sciences and worldwide food security.

    Grain traits are major constraints in rice production, which are key factors in determining grain yield and market values. This study used two recombinant inbred line (RIL) populations, RIL-JJ (japonica/japonica) and RIL-IJ (indica/japonica) derived from the two crosses Shennong 265/Lijiangxintuanheigu (SN265/LTH) and Shennong 265/Luhui 99 (SN265/LH99). Sixty-eight quantitative trait loci (QTLs) associated with 10 grain traits were consistently detected on the 12 chromosomes across different populations and two environments. Although 61.75% of the QTLs clustered together across two populations, only 16.17% could be detected across two populations. Eight major QTLs were detected on the 9, 10 and 12 chromosomes in RIL-JJ under two environments, a novel QTL clustered on the 10 chromosome, qGT10, qBT10 and qTGW10, have a higher percentage of explained phenotypic variation (PVE) and additive effect; 15 major QTLs were detected on the 5, 8, 9, and 11 chromosomes in RIL-IJ under two environments, a novel clustered QTL, qGT8 and qTGW8, on the 8 chromosome have a higher additive effect. Finally, the analysis of major QTL-BSA mapping narrowed the qTGW10 to a 1.47-Mb region flanked by simple sequence repeat markers RM467 and RM6368 on chromosome 10. A comparison of QTLs for grain traits in two different genetic backgrounds recombinant inbred line populations confirmed that genetic background had a significant impact on grain traits. The identified QTLs were stable across different populations and various environments, and 29.42% of QTLs controlling grain traits were reliably detected in different environments. Fewer QTLs were detected for brown rice traits than for paddy rice traits, 7 and 17 QTLs brown rice out of 25 and 43 QTLs under RIL-JJ and RIL-IJ populations, respectively. The identification of genes constituting the QTLs will help to further our understanding of the molecular mechanisms underlying grain shape.

Marker assisted selection (MAS) for residual feed intake (RFI) is considered to be one of the powerful means to improve feed conversion efficiency, and therefore reduce production costs. To test the inner relationship among body compositions, growth traits and RFI, four models were proposed to assess the extensively explanatory variables accounting for partial variables in feed intake besides metabolic body weight and growth rate. As a result, the original model (Koch’s model) had the lowest R2 (80.78%) and the highest Bayesian information criterion (1 323.3) value among the four models. Moreover, the effects on RFI caused by single nucleotide polymorphisms (SNPs) were assessed in this study. Twelve SNPs from 7 candidate genes were genotyped in 2 Chinese native strains. rs14743490 of RPLP2 gene showed suggestively significant association with initial body weight in both strains (P<0.10). rs15047274 of TAF15 was significantly associated with growth weight, final weight, and feed intake (P<0.05) in N301 strain, in contrast, it was only suggestively significant associated with feed intake (P<0.10) in N414 strain. rs15869967 was significantly associated with RFI in N414 strain but not in N301 strain. This study has identified potential genetic markers suitable for MAS in improving the above mentioned traits, but these associations need to be rectified in other larger populations in future.

indica and japonica are the two most important subspecies of Asian cultivated rice. Identifying mechanisms responsible for population differentiation in these subspecies is important for indica-japonica hybridization breeding. In this study, subspecies and economic trait differentiation patterns were analyzed using morphological and molecular (InDel and Intron Length Polymorphism) data in F2 and F3 populations derived from indica-japonica hybridization. Populations were grown in Liaoning and Guangdong provinces, China, with F3 populations generated from F2 populations using bulk harvesting (BM) and single-seed descent methods (SSD). Segregation distortion was detected in F3-BM populations, but not in F3- SSD or in F2 populations. Superior performance was observed with respect to economic traits in Liaoning compared with that in Guangdong and 1 000-grain weight (KW), seed setting rate (SSR) and grain yield per plant (GYP) were significantly correlated with indica and japonica subspecies types. Analysis of molecular and morphological data demonstrated that the environment is the main factor giving rise to population differentiation in indica-japonica hybridization. In addition, we also found that KW, SSR and GYP are related to subspecies characteristics and kinship, which is possibly a significant factor resulting in economic trait differentiation and determining environmental adaptability. Our study has provided new insights into the process of population differentiation in these subspecies to inform indica-japonica hybridization breeding.

Premature senescence in crop production, especially occurred at the late growth stage, generally results in a reduction inyield and quality. Therefore, it is beneficial for yield and quality to properly delay senescence of plant tissues during thelate developmental stage. In this study, it was observed that the chlorophyll content and photosynthetic rate weregradually decreased along leaf growth progression, and the rates of reduction were promoted by drought. Based on gaschromatography-mass spectrometry (GC-MS) analysis, total eight, five, seven, and five kinds of organic compounds thatputatively associated with the tissue senescent progression were identified in leaves, fruit branches, petals, and sepals,respectively. It was found that the identified organic compound, such as α-pinene, β-pinene, and pentadecane werepresent in different tissues. Among the total ten organic substances identified to be related with the leaf senescence, halfwere specifically detected in the drought treatment. These results suggest some biochemical pathways associated withthe leaf senescence are distinctly regulated by drought. The identified organic compounds in the tested tissues showedthree types on the performance pattern based on the contents along with the senescent progression, including graduallyincreasing, decreasing, and a curve with one single peak. Thus, during the senescence process in tissues, a subset ofmetabolic substances occur modifications on the quantities, reflecting a complicate biochemical reactions are initiated viathe senescence signals. Further analysis of the important organic substances will be helpful for elucidation of the tissuesenescence mechanism at the biochemical level and provide a new insight of the senescence signaling transductions incotton.