Consonant and vowel reduction are often encountered in speech, which might cause performance degradation in automatic speech recognition (ASR). Our recently proposed learning strategy based on masking, Phone Masking Training (PMT), alleviates the impact of such phenomenon in Uyghur ASR. Although PMT achieves remarkably improvements, there still exists room for further gains due to the granularity mismatch between the masking unit of PMT (phoneme) and the modeling unit (word-piece). To boost the performance of PMT, we propose multi-modeling unit training (MMUT) architecture fusion with PMT (PM-MMUT). The idea of MMUT framework is to split the Encoder into two parts including acoustic feature sequences to phoneme-level representation (AF-to-PLR) and phoneme-level representation to word-piece-level representation (PLR-to-WPLR). It allows AF-to-PLR to be optimized by an intermediate phoneme-based CTC loss to learn the rich phoneme-level context information brought by PMT. Experimental results on Uyghur ASR show that the proposed approaches outperform obviously the pure PMT. We also conduct experiments on the 960-hour Librispeech benchmark using ESPnet1, which achieves about 10% relative WER reduction on all the test set without LM fusion comparing with the latest official ESPnet1 pre-trained model.